association	dataset	threshold value	standardized value
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.938686
ZZZ3	ENCODE Transcription Factor Targets	1.0	null
Liver Failure, Acute	CTD Gene-Disease Associations	1.0	1.12495
KDM5B_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182835,GSE182836_0_v_1_siah2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
OD-13-IE31_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237308
Perturb_3263_KD_DDIT3_SRP335446	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.66416
CARM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24271
SIRT6_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-A58767537_afatinib_HS578T_24_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
TCCPAN2_PANCREAS	CCLE Cell Line Proteomics	1.0	2.35451
isoproterenol hydrochloride_rattus norvegicus_gpl1355_gse7999	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
BHY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4719
GSE243683_0_v_1_s100a16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PFN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68162
DHRS4L2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.3019
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CREB1	ENCODE Transcription Factor Targets	1.0	null
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.089
Alcohol poisoning_Pancreas_GSE3311	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	0.505799
TA-34-CK62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.943488
10025_ZC3H4_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.521699
amygdaloid complex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.39477
hypoglossal nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.27399
POLR2A_K562_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ampulla	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.608
Synovial sarcoma_Synovial Membrane_GSE6461	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.49669
Spastic ataxia 5	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.007
HSF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.5723
substantia nigra, compact part	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.08126
NKM-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.79091
ED-92-AL11_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.254104
HBE cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.945
3370_GINS2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.519983
RELA_GM15510_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB-40-GN91_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.273889
CRCGN017_MCF10A.WT.HP_24H:C24	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.26755
POLR2A_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12872_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cranial nerve disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.079
CHD7_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Embryonic brain	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.341
NADH dehydrogenase complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
AKT1_OE_GDS2308[_473_mouse_heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE156708_1_v_2_fbxo11_human	RummaGEO Gene Perturbation Signatures	1.0	null
KP-N-YS	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.00683
PMC2148057__F5	PFOCR Pathway Figure Associations 2024	1.0	null
MA-43-MR37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201493
layer 1 of PCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.05747
YY1_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BICR31	CCLE Cell Line Gene CNV Profiles	1.0	1.64074
VA-48-TW80_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.273827
Ovary	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE192513,GSE192515_2_v_0_atg16l1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ZC3H11A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE237040_4_v_1_notch3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BF-00-PE90_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236239
6581_POT1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.35957
BRD-K99252563_QL-XII-47_SKBR3_24_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
YY1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE213588_10_v_2_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE136869_1_v_0_lpar2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CEBPA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.3492
IA-35-VT87_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258323
GSE183335,GSE183351_3_v_2_lin28b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
cd8.Tcell	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.20851
Ecsit-NDUFAF1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.075
GSE106661,GSE106665_2_v_3_arid1a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.231
Inferior olivary complex	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.47106
Perturb_14680_KO_P2Y14_SRP044222	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.80806
membrane part	GO Cellular Component Annotations 2015	1.0	null
GSE131425_2_v_0_arg2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K56ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Mitochondrial complex I assembly model OXPHOS system	WikiPathways Pathways 2024	1.0	null
amygdaloid complex_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.29113
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.470763
GSE248045,GSE248046_6_v_1_runx1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Secondary motor area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.13198
ventricular (matrix) zone of pons	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.18307
globose nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.38697
CF-24-KQ98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.287646
primary auditory cortex (core)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.76212
TCF12_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUPT20H	ENCODE Transcription Factor Targets	1.0	null
SCC25	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42091
GSE74251_0_v_1_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
OB granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.60581
nucleus of the inferior collicular brachium, caudal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.20086
HCC70	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.84454
CTCF_fibroblast of pedal digit skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE62292,GSE62295_2_v_0_col4a3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hsa-miR-4726-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
S0-EE-XFDA_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.24919
t-lymphoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.251606
mantle zone of r2Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.22982
anterior (rostral) cingulate (medial prefrontal) cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-3.27502
FOXA2_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NKX2-8	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.9799
H2AFZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7657662__F2	PFOCR Pathway Figure Associations 2024	1.0	null
CTCF_GM12873_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
8433_SRSF3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.567052
H3K4me3_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
ID-00-IC14_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.507689
intermediate stratum of r5BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.30453
DCP1A-22483619-HELA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
generation of precursor metabolites and energy	GO Biological Process Annotations 2015	1.0	null
DC-51-WE27_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.330386
urogenital system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
BA-26-GI09_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.243116
NCS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.89764
respiratory chain complex i	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
ID-26-HX79_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.248727
UQCRFS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02283
H3K27ac_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BRD-K13566078_BMS-345541_BT20_24_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
7442_RPL18A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.552677
H3K4me3_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
WC-09-GD62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.421535
Innate Immune System	Reactome Pathways 2024	1.0	null
6793_PRPF31_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.878915
diencephalon	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GSE213588_8_v_13_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE226452_1_v_2_imiquimod_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
hip	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.540981
PMC3607232-mmc1.xls-MLLN_prom_RS411-MLL_body_RS411_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
FA-36-VA24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.25553
7310_RINT1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.517661
GSE158834_10_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Left ventricle	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.599
Ubiquinone-2	HMDB Metabolites of Enzymes	1.0	null
GSE158834_0_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Skin	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.58449
TAF7L-23326641-C3H10T1-2-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_GM12864_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE168797_4_v_6_cannabidiol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MAZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC6	ENCODE Transcription Factor Targets	1.0	null
RAC3-21632823-H3396-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Paramedian lobule	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.07165
H3K27ac_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
aging	GAD High Level Gene-Disease Associations	1.0	0.295739
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.94231
CE-39-DG56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.226288
adrenal_4d	HPA Tissue Sample Gene Expression Profiles	1.0	0.844968
NF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07516
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
blood vessel endothelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.129233
ED-83-GF49_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.317337
H3K4me3_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE228263_0_v_1_elesclomol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KB-46-EJ60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.31044
Lung adenocarcinoma_LUAD_TCGA-78-7163-01A-12R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cytoplasmic part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
SRF_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_BJ_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-7740-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27ac_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
blood vessel	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-ETV4_ETV4	Rummagene Transcription Factor Associations 2026	1.0	null
Hematopoietic cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
H3K4me3_NB4_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_GM06990_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTF3C2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE249544,GSE249637_6_v_5_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of villous mesenchyme_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
DC-93-NP78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.332209
H4K20me1_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
COA1	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_cardiac fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
4578_LIG1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.6662
Pheochromocytoma and Paraganglioma_PCPG_TCGA-P8-A5KD-11A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE129153_0_v_1_forskolin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27ac_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SA1-27219007-CHIP-SEQ-BCELLS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
4940_MED18_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.745829
inferolateral temporal cortex (area TEv, area 20)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.01261
Presubiculum, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.16418
REST_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
b-lymphocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.11221
8599_SUPT6H_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.709069
HSC4	CCLE Cell Line Gene CNV Profiles	1.0	1.51604
GSE116810_5_v_3_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
secretory granule membrane	GO Cellular Component Annotations 2025	1.0	null
3409_NOP53_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.558731
MCF7_Aurora A Inhibitor I_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0149788
Acute Myeloid Leukemia_LAML_TCGA-AB-2986-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ND-54-FY31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201602
H3K27ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
1979_CXXC1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.523818
alitretinoin_homo sapiens_gpl6480_gse43090	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
K562_BMS-911543_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0205231
CTCF_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HNF4A-19761587-CACO-2-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Neoplasms, Experimental	CTD Gene-Disease Associations	1.0	1.1786
BD-33-HT38_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.361671
HF-57-QB74_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.282844
IRF4_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXA2-19822575-HEPG2-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
3586_GTF3C3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.740699
2269_DNA2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.658629
t67-small-intestine_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	1.60456
GSE246911,GSE246913_4_v_1_arid1a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.936964
4926_MEAF6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.70737
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.65
LA-44-KW22_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.31277
AIDA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34547
PMC5263239-mmc2.xls-SEM_-_MLL-AF4-Non-spreading_targets_gene_names_2497_unique_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
GSE212312_2_v_3_fbxw7_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pulmonary artery endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.202242
chr11_78105325_T_C_b38	GTEx eQTL 2025	1.0	3.24799
DB-21-FY75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.16995
TAF1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE201042_6_v_1_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9400428-7272371.f2.docx-1-MYSM1_MYSM1	Rummagene Transcription Factor Associations 2026	1.0	null
UF-44-NQ36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.250181
NDUFB7	Pathway Commons Protein-Protein Interactions	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.144
NOC4L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.12145
lung carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.763494
SRF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-31	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
H3K4me3_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
BB-62-MS83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.291356
H3K4me1_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
645_ATP1A1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.766876
posterior (caudal) superior temporal cortex (area 22c)_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.927014
GB-81-GK41_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.371632
striatum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.32202
GSE193258,GSE193259_2_v_0_osimertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
SP1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4738-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
CRCGN012_HEPG2_24H:M13	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.96886
H3K4me3_cardiac fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SP1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_4203_KO_Fmr1_SRP075646	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.86811
H3K4me3_astrocyte of the cerebellum_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Mitochondrial metabolism disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.948
7431_RPL10A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.872413
GSE208350_0_v_1_fgfr1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
DE-99-OT37_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.226543
INO80B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16955
hypothalamus	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
CTCF	ENCODE Transcription Factor Targets	1.0	null
NCI-H1882	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.896789
WB-92-TT14_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.265343
PMC8519939-41525_2021_248_MOESM5_ESM.xlsx-NFE2L2_V2-Ensemble_gene_ID_NFE2L2	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
horizontal nucleus of the diagonal band, transitional part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.35603
H2AFZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA3_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SuperiorCervicalGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.84943
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.154
17533364-TableS3	GeneSigDB Published Gene Signatures	1.0	null
oculomotor nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.83105
GSE146894_3_v_8_hira_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SkeletalMuscle	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.13914
CHD2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
EBF1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Neurotoxicity Syndromes	CTD Gene-Disease Associations	1.0	1.21402
H3K4me1_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
JUND_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE195503_3_v_2_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TE9	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38046
RELA_GM19099_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H460	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.896789
NCI-H1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.52822
GSE236228_0_v_1_penfluridol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
periventricular stratum of m1B	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.19789
anterior (rostral) cingulate (medial prefrontal) cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.3912
hsa-miR-3942-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
U-698-M	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.38118
GSE122215,GSE122217_5_v_2_peg10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-SNU-1	GDSC Cell Line Gene Expression Profiles	-1.0	-3.09955
Hepatic Cirrhosis_Hepatic Tissue_GSE1843	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.59037
cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09745
tardbp_19910924_hek293e_lof_human_gpl570_gds3730	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.506497
gata3_21892208_mda_mb_231_gof_human_gpl570_gds4080	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.53771
EA-06-CH36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.331448
AB-85-JR73_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.298169
PMC7149918-12974_2020_1781_MOESM1_ESM.xlsx-Table_S7_CEBPB_Astrocyte_marker-Ensembl_ID_CEBPB	Rummagene Transcription Factor Associations 2026	1.0	null
Ischemic Stroke	DisGeNET Gene-Disease Associations	1.0	null
CBX3_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AA-57-FZ47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.319489
PMC4634137-ncomms9549-s7.xlsx-ZF_Hair_cell_data-Unnamed_1_CREBZF	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_WI38_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
RFX5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-57-ZF49_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.370386
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.36048
IRF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-673	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.97595
NURR1	MotifMap Predicted Transcription Factor Targets	1.0	null
subgenual (subcallosal) division of MFC (area 25)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.00671
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.388538
AD-58-PW17_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.371854
BA-40-IU73_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.347535
H3K4me3_HEK293_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NADH:ubiquinone oxidoreductase, subunit b14.5b	InterPro Predicted Protein Domain Annotations	1.0	null
BRD-K65182930_NVP-AUY922_MCF7_3_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
blood	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.058461
6876_PSMD8_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.588163
embryonic structure	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
RD-90-OY66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.872142
JB-65-ON98_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.269557
GSE213588_10_v_4_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
REST	ENCODE Transcription Factor Targets	1.0	null
3072_FGFR1OP_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.03087
TAF1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AOB, glomerular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.61161
ETS1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FAD	HMDB Metabolites of Enzymes	1.0	null
CTCF_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
c2c12	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.29008
3-methylglutaconic aciduria	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.128
CF-82-LL11_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258948
Ascomycin	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.76
CTCF_fibroblast of villous mesenchyme_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6987220-41467_2020_14312_MOESM5_ESM.xlsx-P53_Spheres-10_names_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
HuP-T4	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.65745
heart muscle	HPA Tissue Protein Expression Profiles	1.0	2.20165
Leigh disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.8
alveolus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.139203
outer portion of lateral ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.841797
panc-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.350743
SC-68-JQ26_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.282561
PSMC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25065
GSE226249_5_v_8_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
PE01	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.946503
BF-49-KQ10_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.304065
Respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.024
H3K4me1_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
WRNIP1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB-21-FY75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.581775
reuniens nucleus, main part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.19253
GSE205316,GSE205317_0_v_1_nrip1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2758_KD_PRMT1_SRP214436	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.7292
Prostate adenocarcinoma_PRAD_TCGA-KK-A8ID-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE175787_5_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE158632_3_v_0_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE119978,GSE180930_3_v_8_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
PPARG-20887899-3T3-L1 PREADIPOCYTE CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
BA-86-AL61_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.35567
HA-22-CY42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.369158
cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.404931
Photoreceptor inner segment	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.541
H3K4me3_fibroblast of villous mesenchyme_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FOXP3	ChEA Transcription Factor Targets	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AS-3777-01A-01R-0864-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
infection	GAD High Level Gene-Disease Associations	1.0	0.293278
AA-85-LB25_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.48607
UF-27-HS98_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.4089
PMC9675280-12950_2022_317_MOESM2_ESM.xlsx-LPS_BB-Cl_vs_LPS-Unnamed_1_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Epithelium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
H3K4me3_fibroblast of the aortic adventitia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE134375_3_v_2_stat3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Integral component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
excretory gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060039
EP300-20729851-FORBRAIN-MIDBRAIN-LIMB-HEART-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
CHD1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MCF7_Tubastatin A HCl_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0176903
H3K4me1_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MAX_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Corpus callosum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.136
MYC_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NELFE_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCL3	ENCODE Transcription Factor Targets	1.0	null
breast cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.105085
GSE250534_0_v_3_cabergoline_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC8481886-Table_1.xlsx-A_subsets-iMSC_fetal_MSC_UC_MSC_bone_marrow_MSC_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
ranolazine_mus musculus_gpl1261_gse25767	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
SMIM20	Pathway Commons Protein-Protein Interactions	1.0	null
disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.498849
t60-adrenal_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	4.90787
GSE166783_8_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
MBD4_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZZZ3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1701_CMTR1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.505412
r8 part of inferior olive	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.41183
U87MG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55444
Pneumonia	CTD Gene-Disease Associations	1.0	1.24056
VA-06-DB75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.79688
POLR2AphosphoS5_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Azurophil granule membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GSE147943_7_v_3_cited2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PB-40-YB26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.209164
E2F4	ChEA Transcription Factor Targets	1.0	null
H3K4me2_H1 BMP4 Derived Trophoblast Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Whipple's Disease_macrophage_GSE16180	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.2776
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5702-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FC-88-AJ86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211045
POLR2AphosphoS2_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_Raji_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7431_RPL10A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.988162
PMC11237048-41598_2024_64364_MOESM1_ESM.pdf-21-NFIA_NFIA	Rummagene Transcription Factor Associations 2026	1.0	null
FOXP1-21924763-HESCS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
EP300_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193258,GSE193259_5_v_14_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
AB-33-EM56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.47511
oxidative phosphorylation	GO Biological Process Annotations 2023	1.0	null
5734_NOL12_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.618924
8886_THG1L_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.54721
GSE87299_2_v_3_nr1d1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE253041_3_v_0_ramp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
dorsolateral prefrontal cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.46375
Perturb_14675_KO_RpL13a_SRP090469	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.58023
TCF12_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE210101,GSE210114_5_v_10_urod_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Transmembrane transporter complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.971
SFXN1	Pathway Commons Protein-Protein Interactions	1.0	null
BC-91-YI62_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.272231
CTCF_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-A24396574_celastrol_LNCAP_3_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
azurophil granule	GO Cellular Component Annotations 2025	1.0	null
GATA1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Motor nucleus of trigeminal	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.57343
OE19	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
GSE145628,GSE145629_1_v_0_myrf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_HEK293_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.06274
PML_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7338_RNF113A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.45498
imatinib_homo sapiens_gpl96_gds3049	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
BRD-K79090631_HY-11009_A549_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE240027,GSE240030_5_v_3_atrx_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.106221
RBBP5	ENCODE Transcription Factor Targets	1.0	null
4153_INTS8_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.654252
RERFLCAD2	CCLE Cell Line Gene CNV Profiles	1.0	1.42454
Edema	HuGE Navigator Gene-Phenotype Associations	1.0	null
kidney	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
proton motive force-driven mitochondrial ATP synthesis	GO Biological Process Annotations 2023	1.0	null
MKN7	CCLE Cell Line Gene CNV Profiles	1.0	1.68924
hsa-miR-4640-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
GSE216238,GSE216241_0_v_1_tonsl_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE100217_2_v_3_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MDAMB436	CCLE Cell Line Gene Expression Profiles	-1.0	-1.66908
Organic acidemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.064
AN3-CA	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Adrenal cortex	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.303
GSE88819_6_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11976845-pr4c00864_si_003.xlsx-Data_S2E_HeLa_LF-Unnamed_4_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
STAT3_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BACH1	ENCODE Transcription Factor Targets	1.0	null
SHOX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	13.656
GSE178714_6_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GC-04-UF36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.787697
GSE213588_8_v_4_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
colonic adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.268137
7929_SIRT7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.905191
RXF393	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.39554
GATA2	ENCODE Transcription Factor Targets	1.0	null
vascular system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.074124
PMC5637904-PATH-243-193-s015.xlsx-human_down_in_ductal_SOX11-Table_S4C_Downregulated_genes_in_lesions_and_tumours_from_DCIS-SOX11_cells_compared_to_DCIS-lacZ_cells_injected_into_the_mammary_duct_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
H2AFZ_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OC-41-DF58_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.318516
H3K4me3_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
superficial stratum of PcPV	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.27744
GSE173810_0_v_1_igf2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
dorsal peduncular cortex, periventricular part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.18041
KC-36-DK23_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.280647
LNCAP	BioGPS Cell Line Gene Expression Profiles	1.0	0.920635
U2OS	CCLE Cell Line Gene Expression Profiles	-1.0	-1.73681
GSE154081_3_v_0_sildenafil_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE163275_1_v_0_irf8_human	RummaGEO Gene Perturbation Signatures	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.47312
Fra-1_KO_GDS5078_403_mouse_Lung	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
hsa-miR-4537	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
NCI-H23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.93116
GSE182680,GSE182683_5_v_12_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_CD14-positive monocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
MS (Multiple Sclerosis)_CNS - Spinal Cord (MMHCC)_GSE842	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.00652
JHOS4	CCLE Cell Line Gene CNV Profiles	1.0	1.36481
CTCF_choroid plexus epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
uterine cervix	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.099028
cervical cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.142114
CTCF_epithelial cell of proximal tubule_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Diseases	CTD Gene-Disease Associations	1.0	1.05274
phenotypic abnormality	GWASdb SNP-Phenotype Associations	1.0	0.028547
CTCF_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BE-82-TS38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.462563
SARS-BatSRBD_60Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.9269
BRD-K99252563_QL-XII-47_SKBR3_24_h_1.11_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
USF1_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC5637904-PATH-243-193-s015.xlsx-human_down_in_ductal_SOX11-Unnamed_7_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.714773
viscus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.271604
hsa-miR-4509	TargetScan Predicted Conserved microRNA Targets	1.0	0.37496
EC-67-PV87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.584065
ZNF784	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2735
GABPA_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE149264,GSE149267_4_v_1_trp53_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
OV56	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.844072
NKX2-1_01_67	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	0.78449
GSE233679_6_v_4_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5117-01A-01R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_GM12891_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
vertebrate muscular system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
ZNF143_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
daudi	HPA Cell Line Gene Expression Profiles	-1.0	-0.951797
CALR_KO_GDS3680_149_mouse_embryonic stem cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
AOB, internal plexiform layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.63998
H4K8ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
EE-03-SG02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.345532
1971_CWC15_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.509724
dorsolateral prefrontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.38191
GSE165122_2_v_1_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
IE-28-SY71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.314887
1148_CACTIN_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.60309
IB-94-WM88_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.284891
CC-14-WK34_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.25007
P30-OHK	GDSC Cell Line Gene Expression Profiles	-1.0	-1.7244
anterior (rostral) cingulate (medial prefrontal) cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.22858
E2F2_KD_GDS4094_447_mouse_Mammary tumors (Myc-induced)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
HF-25-LA47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.273034
primary motor cortex (area M1, area 4)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.971303
H3K4me3_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POU2F2_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cytoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
SC-68-JQ26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.272395
BHY	CCLE Cell Line Gene CNV Profiles	1.0	1.97975
NDUFV1	Pathway Commons Protein-Protein Interactions	1.0	null
KA-75-LP02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.933365
arcuate nucleus of hypothalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	3.18611
Metallochaperone complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.706
Anemia, Hemolytic	CTD Gene-Disease Associations	1.0	1.12737
GM2493	BioGPS Cell Line Gene Expression Profiles	1.0	1.29403
7455_RPL27_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.54335
AD-86-ES28_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205029
ARHGEF10L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03506
496100307_FWM_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.17142
496100395_TCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.13084
H3K9ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
an3ca	HPA Cell Line Gene Expression Profiles	-1.0	-1.57353
ZKSCAN1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
periventricular nucleus, preoptic portion	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.34295
H4K91ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
lung adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.03325
GSE252857_1_v_3_klf15_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GABP-19822575-HEPG2-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
KA-29-AB08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.857161
anterior group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.12002
ONCODG1	CCLE Cell Line Gene CNV Profiles	1.0	2.18556
ventrolateral prefrontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.998531
Brain Lower Grade Glioma_LGG_TCGA-CS-4944-01A-01R-1470-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BD-33-HT38_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.202314
GSE157594_0_v_4_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K9ac_Fetal Lung	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_Caco-2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PATU8988T_PANCREAS	CCLE Cell Line Proteomics	1.0	3.7935
BA-40-KU28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.322096
NF-21-HQ00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.420508
stratum radiatum of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.30322
DA-15-PU65_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.493144
GSE62843,GSE64371_2_v_3_furan_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_keratinocyte_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FED48h_vs_D2FAST48h_968_AR-DE-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Rectum adenocarcinoma_READ_TCGA-DC-4749-01A-01R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
6515_POLD1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.588864
LIN7C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.33084
GSE63048_11_v_8_morc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EE-03-SG02_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211561
GSE201239_6_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE158834_7_v_9_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE112761,GSE112767_2_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H2AFZ_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
THAP1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JA-77-UH38_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.228317
mitochondrial inner membrane	GO Cellular Component Annotations 2015	1.0	null
CF-56-LO98_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.32291
frontal pole, left, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.49985
GSE172490_5_v_3_junb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cervical adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.168167
SAMD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15189
HDAC2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Water vascular system	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.605
Dentate gyrus, polymorph layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.22665
SKMEL30	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35608
squamous cell carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.320956
PMC6643872__F2	PFOCR Pathway Figure Associations 2024	1.0	null
162_ADPGK_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.650947
Acute Myeloid Leukemia_LAML_TCGA-AB-2830-03A-01T-0736-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
USF1_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Urinary system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Prostate adenocarcinoma_PRAD_TCGA-KK-A7AW-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
cancer	GAD High Level Gene-Disease Associations	1.0	0.293278
NADH	HMDB Metabolites of Enzymes	1.0	null
CTCF_fibroblast of gingiva_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9680_UTP14A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.716011
6802_PRPF6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.24494
GSE172016_2_v_1_paclitaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
Rectum adenocarcinoma_READ_TCGA-EI-6882-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
BB-43-YQ76_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.32491
IZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0585
CHD1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Thrombocytopenia	CTD Gene-Disease Associations	1.0	1.02336
inner portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.861178
Brain Lower Grade Glioma_LGG_TCGA-VM-A8CA-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JEKO-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-4.46978
ELF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CC-20-ZO24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.254207
REST_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11612_KD_BRD8__SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.09926
KA-75-LP02_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.309008
TFAP2C	ChEA Transcription Factor Targets	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.92023
H3K4me3_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE202434,GSE202438_9_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE207301,GSE207303_1_v_3_tp53bp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ATF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RCOR1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_K562_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
adrenal gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GSE210885_2_v_1_klf4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Uterus	GTEx Tissue Gene Expression Profiles 2023	-1.0	-1.56261
PA-64-LE28_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.359347
AKT1_knockout_214_GSE39699	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.24795
H3K27ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
STAT3_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11623_KD_DUSP11_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
IB-33-TE51_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.08915
fluoxetine_mus musculus_gpl1261_gds2803	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
MPP89	CCLE Cell Line Gene CNV Profiles	-1.0	-2.13302
DA-35-DU85_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.29664
retinal pigment epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.152722
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.525
CREB1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
oxidation-reduction process	GO Biological Process Annotations 2015	1.0	null
GSE211126_1_v_4_hapln1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cerebellar cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.04168
GSE211128_7_v_0_angptl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
NR2F2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NADH dehydrogenase complex assembly	GO Biological Process Annotations 2023	1.0	null
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_C91-PL_LPS_vs_DC_Jurkat-DEG_MDDC_C91-PL_LPS_vs_MDDC_Jurkat_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
TP53-23651856-MEF-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
OE-78-TD20_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.570255
9685_UTP23_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.548198
Kidney renal clear cell carcinoma_KIRC_TCGA-A3-3328-01A-01R-0864-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NY	GDSC Cell Line Gene Expression Profiles	-1.0	-2.31583
GSE169356_0_v_5_ivermectin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE144453,GSE144454_1_v_0_tfdp1_human	RummaGEO Gene Perturbation Signatures	1.0	null
BT-483	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.843198
Liver hepatocellular carcinoma_LIHC_TCGA-CC-5259-01A-31R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11661_KD_PLCB1_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.37993
POLR2A_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1_erythroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE199255,GSE199356_4_v_1_pds5a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Squamous Cell Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
HE-55-NT77_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.247421
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A7OP-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CD-08-MF16_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.215619
6748_PRIM2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.679521
JF-30-FW92_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.314677
MAX_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BF-69-DX62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237532
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
5658_NFYC_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.534593
H3K27ac_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC10721014-pone.0295542.s010.xlsx-Table_S9-Table_S9_Spearman_s_correlation_between_the_expression_levels_of_ESRRA_and_OXPHOS_subunits_genes_ESRRA	Rummagene Transcription Factor Associations 2026	1.0	null
SECISBP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.54523
IE-80-DC24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200521
hybridoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.401007
amygdaloid complex_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.965977
QH2	HMDB Metabolites of Enzymes	1.0	null
GSE231648_1_v_2_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CRCGN017_MCF10A.TP53.M_24H:M19	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.48983
MA-43-MR37_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.233466
Combined oxidative phosphorylation deficiency 34	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.978
GSE256181_1_v_0_etv2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10810548-pone.0289518.s002.xlsx-SOM_w_identifiers-target_gene_GRHL3	Rummagene Transcription Factor Associations 2026	1.0	null
BC-91-YI62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212427
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A7OL-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
Intracellular vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Gitter cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.614
ELF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TrigeminalGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.984631
Sengers syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.172
PMC5263239-mmc2.xls-SEM_siMLL-AF4-MLL-AF4_gene_targets_with_decrease_in_MLL-AF4_ChIP-seq_signal_2198_unique_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
SNU668	CCLE Cell Line Gene CNV Profiles	1.0	1.81585
GSE62843,GSE64370_0_v_3_furan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11465086-mmc2.xlsx-Table_ES_1_markers_c0_LPS_Vs_Co-Gene_Expression_Data_1_markers_c0_LPS_Vs_Control_related_to_Figure_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
BHLHE40_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
respiratory chain	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
CTCF_mammary epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UACC893	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.832369
STAT1	ENCODE Transcription Factor Targets	1.0	null
amygdaloid complex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.921564
primary visual cortex (striate cortex, area V1/17)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.72837
4780_MAK16_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.559014
H3K4me3_fibroblast of lung_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
GSE88819_11_v_4_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
YY1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Huntington's disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.27
estrogen-receptor positive breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.617094
H3K9ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of upper leg skin_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Rectum adenocarcinoma_READ_TCGA-DC-6155-01A-11R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
7097_RANGAP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.766187
GSE101527_3_v_2_smad4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
lung	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.574416
SK-MM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02928
GATA6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.335
8904_TICRR_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.574802
GSE124471,GSE124488_2_v_3_lats1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE173262_2_v_0_ash1l_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RETREG2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.51505
MAFK_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1693_CMIP_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.58128
SIRT6	ENCODE Transcription Factor Targets	1.0	null
SUDHL6	CCLE Cell Line Gene Expression Profiles	-1.0	-2.05887
endometrium_8b	HPA Tissue Sample Gene Expression Profiles	-1.0	-2.38432
RC-K8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
paraventricular nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.30175
NE-20-WM78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.38508
H3K4me2_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
8216_SNRNP200_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.04822
GSE210655_1_v_4_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
primary visual cortex (striate cortex, area V1/17)_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.18938
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2376_DROSHA_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.7253
Nucleoid	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.843
8126_SLU7_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.15953
Dorsal peduncular area, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.75499
8184_SMN2_ENST00000380743.4	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.60444
GSE214596,GSE214598_1_v_2_rosiglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_BJ_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ME-42-RD46_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.524433
colon	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.136951
ndufc2	GeneRIF Biological Term Annotations	1.0	null
BE-45-UU35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.39437
A-498	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.74069
u2197	HPA Cell Line Gene Expression Profiles	1.0	0.837265
OF-05-CB18_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.262488
CTCF_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
FF-22-NB12_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206111
SOX2-19829295-ESCS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
H3K27ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.854507
ME-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.67115
GSE239578_0_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Mitochondrial inner membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.124
paraventricular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.44182
Fetal Growth Retardation	CTD Gene-Disease Associations	1.0	1.10246
H3K4me3_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
NR4A2::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.7006
MCF7_Quercetin_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0134481
superficial stratum of r9BI	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.38731
GSE227592_6_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H28	GDSC Cell Line Gene Expression Profiles	-1.0	-1.59244
GSE175787_11_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
blood cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056248
GSE239578_1_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC6928094-395_2019_765_MOESM7_ESM.xls-DEGs_AR7_vs_Pre-patterned-List_of_differentially_expressed_genes_in_AR7_vs_Pre-patterned_cells_THRA	Rummagene Transcription Factor Associations 2026	1.0	null
SK-CO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.66903
BD-49-MD69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.274582
INHA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.00641
HCC1806	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.55864
S0-EE-Y6WJ_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237817
POLR2AphosphoS5_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Thymus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.465
medial part of r5B	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27037
8426_SRRT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.766841
H3K4me3_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PAX5_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IRF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
layer 5 of InsCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.53126
H1_BMP4_Derived_Trophoblast_Cultured_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.97553
single-organism metabolic process	GO Biological Process Annotations 2015	1.0	null
H3K27ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ZD-85-ND87_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.41408
r2 part of trigeminal sensory column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.22631
H3K27ac_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
other source	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.405935
mediodorsal nucleus of thalamus_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.901774
SMARCA4-23332759-OLIGODENDROCYTES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
runx1	GeneRIF Biological Term Annotations	1.0	null
GSE223241_2_v_0_cdkn2a_human	RummaGEO Gene Perturbation Signatures	1.0	null
DB-56-XL71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.366448
FD-88-CF51_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.408369
RAD21	ENCODE Transcription Factor Targets	1.0	null
USF1	ENCODE Transcription Factor Targets	1.0	null
mitochondrial ATP synthesis coupled electron transport	GO Biological Process Annotations 2025	1.0	null
EZH2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
u87	HPA Cell Line Gene Expression Profiles	-1.0	-1.37292
BE-59-WG31_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.293343
RFX5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRAF3IP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.53121
AC-47-YZ27_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.796875
GSE193258,GSE193259_2_v_12_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
5903_NUP93_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.37486
POLR2AphosphoS5_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
placenta	HPA Tissue Protein Expression Profiles	-1.0	-0.702417
PMC10350077-media-7.xlsx-Microglia_P_LPS_All_Up_GO-Gene_Symbol_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_11644_KD_KCNQ4_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.92565
r8 portion of the hypoglossal motor nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32012
11152_NON-TARGETING_NON-TARGETING	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.654127
GSE158182_4_v_0_pnpla3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
8826_TEX10_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.801609
MCF7_Busulfan_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.016275
HS944T	CCLE Cell Line Gene Expression Profiles	-1.0	-1.47141
Non-alcoholic fatty liver disease	KEGG Pathways 2026	1.0	null
cytoplasm	GO Cellular Component Annotations 2015	1.0	null
Medulla oblongata	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.166
GSE198380_0_v_1_phgdh_human	RummaGEO Gene Perturbation Signatures	1.0	null
FTC-133 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.684
BF-94-GX05_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214282
H3K4me3_cardiac muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
BRD-K21565985_XYLAZINE_HCC515_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
KNS-81-FD	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.00877
OA-62-NJ00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.47294
ELF1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOSL2_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SARS-dORF6_72Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.6853
MEWO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.85658
Kidney Chromophobe_KICH_TCGA-KM-8476-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lytic vacuole membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
MBD4_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MCF10DCIS.COM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.933115
ACHN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.19281
6396_PKM_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.632338
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A119-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K9ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZFX-18555785-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
UF-44-NQ36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.254287
IRF2	JASPAR Predicted Transcription Factor Targets	1.0	null
stratum radiatum of caudal CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.43908
primary motor cortex (area M1, area 4)_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.27342
H3K9me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
nadh dehydrogenase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.753623
Liver Neoplasms	CTD Gene-Disease Associations	1.0	1.44872
DA-86-GO43_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.358876
FA-03-CZ62_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.208209
sublayer 6a of FCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.00174
Ovarian serous carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.037
PBX3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE116810_5_v_1_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11993713-41598_2025_96655_MOESM1_ESM.xlsx-S10-Table_S10_MR_results_of_the_discovery_blood_cis-eQTLs_and_Sepsis_outcomes_in_IVW_or_Wald_ratio_methods_NR3C2	Rummagene Transcription Factor Associations 2026	1.0	null
AB-41-VZ28_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.228704
18387200-Genes	GeneSigDB Published Gene Signatures	1.0	null
496100463_FWM_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.37833
FF-86-NH56_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214815
TCF12_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sulfide	HMDB Metabolites of Enzymes	1.0	null
white matter of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0459
Female reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.114
fluoxetine_mus musculus_gpl1261 _gds2803	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
IA-37-FR87_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236505
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AB-33-EM56_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.976979
YB-79-DM48_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.329767
Olfactory bulb	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.132
H3K4me2_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MXI1	ENCODE Transcription Factor Targets	1.0	null
GSE169356_2_v_4_ivermectin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7541_RPTOR_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.812758
breast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.088581
H3K27ac_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KAT2A	ENCODE Transcription Factor Targets	1.0	null
embryo	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE119978,GSE180930_6_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27ac_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_olfactory bulb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
QF-71-QI30_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.23511
5164_MPHOSPH6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.591224
chr11_78139763_C_T_b38	GTEx eQTL 2025	1.0	1.58977
MDAMB175VII	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.85964
NR2F6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.9676
SPCS3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04861
classic	GeneRIF Biological Term Annotations	1.0	null
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.827429
GSE210580_4_v_7_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VC-19-YG34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.684449
Liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.026
SLR26	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43074
lung cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.935341
mitochondrial nucleoid	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.41182
Vacuolar membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GABPA_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NE-94-VE83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.26457
7493_RPP40_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.724452
SNU-668	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.6744
LOXIMVI	CCLE Cell Line Gene Expression Profiles	-1.0	-2.11281
fusiform gyrus, left, bank of the its	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.826315
CTCF_GM12873_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GD-79-TW34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.275583
FD-15-HD09_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.227475
primary somatosensory cortex (area S1, areas 3,1,2)_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.9421
striatum_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.39852
AB-18-YN11_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.558792
M-1	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.01573
BB-87-SF89_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.743992
AC-80-DI95_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.338542
CEBPB_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GE-01-QX17_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.313755
VZ in midcingulate neocortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.918694
Prelimbic area, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.09578
AB-21-VE32_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.345913
7454_RPL27A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.632563
mammarygland.lact.	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	2.02303
viscus	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Lung	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.970569
SMARCB1	ENCODE Transcription Factor Targets	1.0	null
6533_POLR1A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.591948
cell part	LOCATE Curated Protein Localization Annotations	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-BD-A2L6-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GABP-19822575-HepG2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
oxidoreductase activity	GO Molecular Function Annotations 2015	1.0	null
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.901774
FOXP2_SK-N-MC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral habenular nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.951495
cyclophosphamide_mus musculus_gpl13209_gse27421	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
RUNX3	ENCODE Transcription Factor Targets	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-TN-A7HI-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE137914_4_v_1_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Ovary	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.24851
Cerebellum	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.933218
CC-14-WK34_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.327702
FOXM1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12783921-MCO2-7-e70584-s001.pdf-3-CENPB_CENPB	Rummagene Transcription Factor Associations 2026	1.0	null
blood	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.09
r7 part of nucleus prepositus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.12522
SKMEL28	CCLE Cell Line Gene CNV Profiles	-1.0	-1.5996
GD-90-RA90_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.25621
PMC4454074-srep10806-s1.pdf-16-MYNN_MYNN	Rummagene Transcription Factor Associations 2026	1.0	null
REST_Panc1_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.52659
PMC11563688-jci-134-173448-s017.xlsx-EC2-gene_TCF15	Rummagene Transcription Factor Associations 2026	1.0	null
SIX5_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HSC4	CCLE Cell Line Gene Expression Profiles	1.0	1.50702
H3K79me2_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of skin of abdomen_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_7123_KO_Prkcd_SRP049245	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.55255
H3K9ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-RY-A840-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE149880_2_v_1_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Mitochondrial respiratory chain complex I	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.731
Perturb_11675_KD_SKP1A_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.6841
GSE206516,GSE206518_2_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
functions	GeneRIF Biological Term Annotations	1.0	null
t69-brown-adipose_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	1.70688
GSE165682_4_v_3_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
COX6C	Pathway Commons Protein-Protein Interactions	1.0	null
GSE127790_4_v_2_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-4486	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
3994_HUWE1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.549751
umbilical cord blood	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Cognitive disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.108
IB-67-WH43_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.240128
SMC3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11650_KD_LOC51136_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
TIFA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.23348
NCI-H1435	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
7469_RPL38_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.715743
BRD-K09635314_-666_HT115_6.0_h_80.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
occipital neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.56078
JA-01-GQ75_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.548824
Mitochondrial proton-transporting ATP synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.854
CTCF_fibroblast of mammary gland_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXP3-21729870-TREG-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE197630_1_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF76	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.3909
cingulum bundle, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.4873
BRD-K01976263_Emetine Dihydrochloride Hydrate (74)_THP1_6.0_h_0.63_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A19T-01A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SRF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-8258-11A-01R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ELF1	ENCODE Transcription Factor Targets	1.0	null
oxidative phosphorylation	GO Biological Process Annotations 2025	1.0	null
GA-88-CF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.326018
CF-87-AS90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.418043
CEBPB_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
imatinib_homo sapiens_gpl96_gds3045	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GD-66-XE49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.7345
2114_DDX27_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.533602
H3K4me3_cardiac mesoderm_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
812_BCR_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.553578
periventricular stratum of AOB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.40487
GE-53-SM76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.218797
6625_PPIE_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.571479
PBX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8333
XRN2	ChEA Transcription Factor Targets	1.0	null
8653_TAF12_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.505841
GSE140322_0_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.39061
Brain Lower Grade Glioma_LGG_TCGA-P5-A72W-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE137914_4_v_3_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A5KF-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE151119_3_v_1_hsf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TE15	CCLE Cell Line Gene CNV Profiles	1.0	1.57479
SARS-CoV_84Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.9768
Terminal loop	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.861
6556_POLR3B_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.935534
QE-79-XO29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.567975
GSE227592_9_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
HCC1319	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09549
hsa-miR-30b	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.0155
r4 part of cochlear sensory column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.41776
Metabolism	Reactome Pathways 2014	1.0	null
JD-44-KF86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.64474
10703_ZNRD1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.667034
Retrograde endocannabinoid signaling	KEGG Pathways 2026	1.0	null
ZBTB7A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KA-75-LP02_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.373761
Sarcoma_SARC_TCGA-FX-A48G-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
r10 portion of the hypoglossal motor nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.8489
E2F4_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE148252_0_v_6_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
oculomotor nucleus, Edinger-Westphal subnucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01103
GSE114690_1_v_0_tnfsf14_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Multimerin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.671
Anterior cingulate area, dorsal part, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.77803
POLR2AphosphoS5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBP_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11631_KD_HSPC182_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.55384
1167_CAMLG_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.513964
H3K4me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of pulmonary artery_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFA4	Pathway Commons Protein-Protein Interactions	1.0	null
20174566-TableS1	GeneSigDB Published Gene Signatures	1.0	null
IF-87-AU84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.488847
GSE155305_2_v_1_ifitm3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
WF-85-JN16_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.310838
superior colliculus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.10165
CTCF_Caco-2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE205729,GSE205731_2_v_1_tazemetostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.066
8228_SNRPD1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.502782
Combined oxidative phosphorylation deficiency 49	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.262
BACH1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MEWO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.33687
OVCAR-5	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.7087
CTCF_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
BCP1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.03719
epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.115749
GSE126777_0_v_1_otub1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFA11	Pathway Commons Protein-Protein Interactions	1.0	null
DB-56-XL71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.26922
CRCGN017_MCF10A.WT.HP_24H:N22	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.2805
3503_GPN2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.568362
endocrine gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057495
H3K4me3_fibroblast of pedal digit skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
MZ in midinferior temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.948944
GSE184884_7_v_1_gps2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
male reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
TAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE169697,GSE169725_1_v_4_prrx1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE203362_0_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
SJSA1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.92121
Perturb_2845_KD_FOXA1_SRP288463	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.67737
CRCGN008_HEPG2_24H:H24	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.70505
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.159
external part of AOD	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.80802
13c4	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.547
BHLHE40_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TLCD5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16784
Internal female genital organ	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
CRCGN015_HEPG2_48H:I10	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.69295
animal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Lung adenocarcinoma_LUAD_TCGA-05-4420-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GA-88-CF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.605432
TEAD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4398389__F1	PFOCR Pathway Figure Associations 2023	1.0	null
EE-16-RH01_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.512508
Urinary tract	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
oxidoreductase activity, acting on nad(p)h, quinone or similar compound as acceptor	GO Molecular Function Annotations 2015	1.0	null
orbital frontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.30202
2291_DNAJC17_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.514746
hsa-miR-769-3p	MiRTarBase microRNA Targets	1.0	null
AC-55-XA97_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.425981
GSE154069_2_v_4_satb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FD-29-MM50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.350314
Esophageal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.723
EGR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.958455
PMC11799530-12276_2024_1380_MOESM1_ESM.xlsx-DEG_KD_PC-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Vagina	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.920068
8669_TAF7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.669348
UBC	Pathway Commons Protein-Protein Interactions	1.0	null
PMC5577301-in-17-237-s001.xls-AR_downregulated_DEGs-Heart_GSE2596_GENE_AR	Rummagene Transcription Factor Associations 2026	1.0	null
MDAMB175VII	CCLE Cell Line Gene CNV Profiles	1.0	1.49075
LCLC103H	CCLE Cell Line Gene Expression Profiles	-1.0	-2.71008
Metabolism	Reactome Pathways 2024	1.0	null
Overnutrition	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.241
U-937	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.951417
LC-57-RH78_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.414712
YY1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE100464,GSE100465_1_v_3_atrx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE154940_1_v_0_nbdy_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MYC_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UTX-26944678-CHIP-SEQ-JUKART-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Perturb_2835_KD_FOXA1_SRP313175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.9571
protein complex	GO Cellular Component Annotations 2015	1.0	null
BRD-K02708799_GSK-1059615_MCF7_24_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
PANC 03.27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18924
MZ in caudal cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.06855
YA-78-MS95_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.27607
POLR2A_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DS-A5RQ-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ED-93-KF69_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.311151
posteroventral (inferior) parietal cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.833451
dorsolateral prefrontal cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.877554
6536_POLR1C_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.790951
H3K4me3_GM12878_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
JUN-27471255-CHONDROCYTES-MOUSE-RIB	ChEA Transcription Factor Targets 2022	1.0	null
respiratory electron transport chain	GO Biological Process Annotations 2015	1.0	null
Lung adenocarcinoma_LUAD_TCGA-91-6831-01A-11R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE185881,GSE185884_2_v_3_ctcf_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A6H3-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_11633_KD_IFNA17_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	19.5229
macromolecular complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE172146_2_v_0_mettl1_human	RummaGEO Gene Perturbation Signatures	1.0	null
7482_RPLP0_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.55455
smooth muscle	HPA Tissue Gene Expression Profiles	-1.0	-0.92341
umbilical artery	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
MAX_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Heart - Atrial Appendage	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.599025
CRCGN015_MCF10A.TP53.M_24H:L19	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.13025
SMARCA4-23332759-OLIGODENDROCYTES-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Lymph node	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.773
YH-13	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE184892_7_v_3_trehalose_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MCF7_PD173074_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0185572
T-lymphoblastic leukemia cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
BCLAF1	ENCODE Transcription Factor Targets	1.0	null
Uterine leiomyoma_Uterus - Myometrium (MMHCC)_GSE593	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	2.01818
gastric cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.105201
BL2130 (RBM15)	NURSA Protein Complexes	1.0	null
AUTS2-25519132-293T-REX-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Parkinson's disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.451
pulmonary artery	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.190099
GSE126345_2_v_5_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TCF12_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZEB1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
aerobic electron transport chain	GO Biological Process Annotations 2023	1.0	null
PMC4344782__F10	PFOCR Pathway Figure Associations 2023	1.0	null
H3K27ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
chr11_78151291_CAG_C_b38	GTEx eQTL 2025	1.0	2.44423
Head and Neck squamous cell carcinoma_HNSC_TCGA-P3-A6T5-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BC-14-CG34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.559975
ME-344	DGIdb Drug Targets 2026	1.0	0.35288
hsa-miR-4714-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
7451_RPL24_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.61697
POLR2A_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me2_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BRCA1	ENCODE Transcription Factor Targets	1.0	null
116_ACTR5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.587827
Uterine Carcinosarcoma_UCS_TCGA-N5-A4RV-01A-21R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Congenital myasthenic syndrome 12	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.109
cell part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
QA-87-NQ04_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.263797
CTCF_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KDM5A	ENCODE Transcription Factor Targets	1.0	null
BA-84-WN26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.704838
STAT5A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WA-06-QR58_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211602
intermediate stratum of DG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0935
TAL1	ENCODE Transcription Factor Targets	1.0	null
5832_NSRP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00168
ventromedial hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.577
EP300_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFB8	Pathway Commons Protein-Protein Interactions	1.0	null
PMC11799530-12276_2024_1380_MOESM1_ESM.xlsx-DEG_KD_PC-Ensembl_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
CRCGN012_HEPG2_24H:D07	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.1159
Breast Neoplasms	CTD Gene-Disease Associations	1.0	1.23042
XD-03-FM54_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.234855
H3K27ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-US-A779-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-N7-A4Y8-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K18ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
r1 part of lateral pontine nuclei	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.37313
H3K9ac_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
G22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.06833
Rectum adenocarcinoma_READ_TCGA-AG-3725-11A-01R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.01328
PMC8017594-LSA-2019-00332_Table_S1_Table_12.xls-DCX-KD_LIS1-KD_DEGs-LIS1-KD_AR	Rummagene Transcription Factor Associations 2026	1.0	null
9991_ZBTB38_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.30078
ELK4_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AKT1_Activation - 6 week induction_GDS2308_718_mouse_Heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
PMC8709578-elife-69843-supp2.xlsx-MIX_Ctr-Nearest_Ensembl_MIXL1	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE182179_5_v_4_kdsr_human	RummaGEO Gene Perturbation Signatures	-1.0	null
LE-94-HL75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.414395
PMC6345883-41598_2018_37397_MOESM10_ESM.xlsx-AR_D0_VS_D14__TRANS-Gene_Name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
TIMM21	Pathway Commons Protein-Protein Interactions	1.0	null
ventrolateral prefrontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.26153
decreased	GeneRIF Biological Term Annotations	1.0	null
PMC8016886-41419_2021_3630_MOESM6_ESM.xlsx-Sheet1-Table_S5_Differentially_expressed_genes_identified_between_HOXC6-low_and_HOXC6-high_expression_CRCs_using_TCGA_cohort_HOXC6	Rummagene Transcription Factor Associations 2026	1.0	null
mammary gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.131855
NR3C1	ENCODE Transcription Factor Targets	1.0	null
OVSAHO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.29387
16284748-TableS4	GeneSigDB Published Gene Signatures	1.0	null
cardiovascular system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Oxidoreductase complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
SLC25A12	Pathway Commons Protein-Protein Interactions	1.0	null
BB-08-WM33_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.312244
ES2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35863
RAD21_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
heart	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.087836
TAF1_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Whole body	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Orbital area, lateral part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.07681
fluoxetine_mus musculus_gpl1261_gse35765	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Prion disease	KEGG Pathways 2026	1.0	null
AOB, mitral cell layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.17083
APLP2_KO_GDS4414_534_mouse_adult cortex	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
MAFF	ENCODE Transcription Factor Targets	1.0	null
GATA3	ENCODE Transcription Factor Targets	1.0	null
H2AFZ_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
respiratory chain complex I	GO Cellular Component Annotations 2023	1.0	null
lung adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.24208
4653_LRPPRC_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.648602
TCF7L2_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fusiform gyrus, left, bank of cos	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.03002
GSE104022_1_v_0_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_11621_KD_DCAMKL3_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	15.317
7562_RRP15_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.642007
QB-06-VC83_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.281578
Desipramine	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.25
MCF7_Obatoclax Mesylate_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0119823
GSE227592_2_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
8597_SUPT4H1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.583609
POLR2A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6250_PGAM1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.50746
Lung adenocarcinoma_LUAD_TCGA-38-4632-01A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
caco2	HPA Cell Line Gene Expression Profiles	1.0	2.42814
hsa-miR-4701-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.670641
Declive (VI), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.45269
HCC1534	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.936964
KE-06-DQ22_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.277339
DLD1	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.86157
MXI1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
limbic system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GSE146982_3_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
FOXM1	ENCODE Transcription Factor Targets	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-P5-A5F1-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE147943_0_v_3_cited2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-SR-A6MX-05A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Disease of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.217
GE-34-TW62_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.360207
HNF4G	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-128-3p	MiRTarBase microRNA Targets	1.0	null
mediodorsal nucleus of thalamus_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.833451
ZBTB7A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cell culture	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.407073
PMC10831540-supplementary_table_1.xlsx-DEG_pc-S-EC2-Unnamed_8_TCF15	Rummagene Transcription Factor Associations 2026	1.0	null
YY1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE210655_1_v_7_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
FOXA1_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE158834_7_v_6_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
7576_RSL1D1_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.696277
HMY-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.0531
BRD-K99633092_-666_A375_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
breast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079025
GSE196671_6_v_8_obox4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RNF170	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.83839
GSE226114,GSE226116_1_v_0_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
JA-01-GQ75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200551
MZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.996222
GATA1	ENCODE Transcription Factor Targets	1.0	null
BB-79-AG41_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.35357
POLR2A_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CRCGN014_HEPG2_24H:G03	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.35647
brownfat	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.40152
ZNF143	ENCODE Transcription Factor Targets	1.0	null
Breast_vHMEC	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-0.951766
OD-23-MK85_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.208616
GSE231648_1_v_5_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hippocampus (hippocampal formation)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.07962
OVCAR-3	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
r4 part of posteroventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.72663
ChIP_SOX17_20123909	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
MAX_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
animal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
NCI-H2122	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.895895
TD-17-NF32_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.528993
POLR2A_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pyramus (VIII), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.2878
rostral part of entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.89877
BB-82-TP51_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.351714
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
YY1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7284929__F7	PFOCR Pathway Figure Associations 2024	1.0	null
GSE180468_1_v_0_arid1a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
gastric cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.102987
mantle zone of TTe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32394
SOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.3658
CAL33	CCLE Cell Line Gene Expression Profiles	-1.0	-1.92827
ZNF384_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
paraventricular nuclei, right of thalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.90131
dactinomycin_mus musculus_gpl6246_gse21233	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
ONCODG1	CCLE Cell Line Gene Expression Profiles	1.0	2.65101
Tourette syndrome	GWAS Catalog SNP-Phenotype Associations 2025	1.0	0.530103
doxycycline_homo sapiens_gpl570_gse21912	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Musculoskeletal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.128
1878_CRNKL1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.28025
SARS-CoV_60Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.67749
EZH2_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SPIB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	85.1267
LMBRD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06035
oxidoreductase activity, acting on nad(p)h	GO Molecular Function Annotations 2015	1.0	null
ventrolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.909898
Perturb_598_OE_HOTAIR_SRP342161	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE218949_0_v_1_cep20_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ventrolateral periolivary nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.74918
H3K27ac_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
EP300_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12713692-mpa-55-e82-s009.xlsx-KRT81__vs_HNF1A-Gene_Name_HNF1A	Rummagene Transcription Factor Associations 2026	1.0	null
GSE203072_2_v_3_rpl3l_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Intramuscular adipose tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.016
Methane monooxygenase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.561
Hypertrophic cardiomyopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.043
Interstitial nucleus of Cajal	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33988
NCI-H1395	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
8-Hydroxycarvedilol	HMDB Metabolites of Enzymes	1.0	null
oxidoreduction-driven active transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
PMC8020666-pnas.2015855118.sd11.xlsx-LPS_strongerResponse-Unnamed_19_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
8669_TAF7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.791335
OVCAR-3	GDSC Cell Line Gene Expression Profiles	1.0	2.37501
CD4_Memory_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.16729
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.068
CEBPB_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
r2 part of trigeminal transition zone	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.89849
CACO-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.27517
CTCF_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-30a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
6853_PSMB5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.511353
A-431	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.66476
PMC6964096__F4	PFOCR Pathway Figure Associations 2023	1.0	null
GSE98898_4_v_1_hoxa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
REST_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PE-69-DO79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203485
CTCF_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11678_KD_TMEM219_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.32413
Lung adenocarcinoma_LUAD_TCGA-78-7161-01A-11R-2039-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Respirasome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.374
3050_FDPS_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.566961
GABPA_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
after	GeneRIF Biological Term Annotations	1.0	null
19204204-SupplementaryTable5	GeneSigDB Published Gene Signatures	1.0	null
ASXL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.49123
9682_UTP15_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.904754
CE-96-GH46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.281599
Organellar ribosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.613
squamous epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059279
thyroid_5c	HPA Tissue Sample Gene Expression Profiles	1.0	2.50825
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A3EO-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
superficial stratum of r8BI	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.40885
Gustatory areas, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.15259
H3K4me3_SK-N-SH_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cyclophosphamide_mus musculus_gpl13209_gds4003	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
CCNC	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.37038
BRD-K64800655_PHA-793887_BT20_24_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
NH6	CCLE Cell Line Gene Expression Profiles	1.0	1.51292
CEBPB_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-05-MR83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231923
H3K4me3_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
mantle zone of OB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.02342
membrane part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043096
H4K20me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BFTC-905	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00439
GSE150557_1_v_0_dnmt1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
chr11_78066356_C_T_b38	GTEx eQTL 2025	1.0	1.74214
choroid plexus of the lateral ventricle	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.42704
5748_NOP2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.81826
HCFC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-A60L-01A-12R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC3470785-NIHMS377161-supplement-6.pdf-6-MAX_MAX	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_H54_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_endothelial cell of umbilical vein_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Guanfacine	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.64
GSE151494_8_v_3_nrp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CDK7_knockdown_124_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.62653
GSE202434,GSE202438_10_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
posteroventral (inferior) parietal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.920565
striatum_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.852398
DB-82-PI34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.284635
PMC4344782__F11	PFOCR Pathway Figure Associations 2024	1.0	null
H3K4me3_Panc1_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE175787_5_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16175
AC-30-XU83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.55886
Brain Lower Grade Glioma_LGG_TCGA-QH-A65X-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
imatinib_homo sapiens_gpl96_gds3046	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
NOMO-1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.748
POLR2AphosphoS5_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
intracellular part	GO Cellular Component Annotations 2015	1.0	null
niacin_mus musculus_gpl1261_gds2605	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
BRCA1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A549_WP1066_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0154765
EKVX	BioGPS Cell Line Gene Expression Profiles	1.0	2.14056
EA-39-YN88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.210699
USF1_A549_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KA-63-FH23_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201332
C170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.831939
Perturb_2157_KO_Tnfaip3_SRP126279	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.80194
SP4	ENCODE Transcription Factor Targets	1.0	null
BC-26-LE04_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.285904
BD-18-MM33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.21556
JARID2-20075857-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
ANKIB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01625
Myelencephalon	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.166
H3K4me3_Jurkat_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
catalytic complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.003079
H3K4me3_fibroblast of mammary gland_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Mitochondrial respiratory chain complex III	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.35
CRCGN009_HEPG2_24H:D11	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.3031
PMC5637904-PATH-243-193-s016.xlsx-human_down_in_fat_SOX11-Table_S5C_Downregulated_genes_in_tumours_from_DCIS-SOX11_cells_compared_to_DCIS-lacZ_cells_injected_into_mammary_fat_pad_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
PMC4944136-srep28995-s2.xls-OTX2-gene_OTX2	Rummagene Transcription Factor Associations 2026	1.0	null
HCC1419	CCLE Cell Line Gene Expression Profiles	1.0	1.79893
intracellular part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
928 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19396
intracellular	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.169099
cellular_component	GO Cellular Component Annotations 2015	1.0	null
cytoplasm	LOCATE Curated Protein Localization Annotations	1.0	null
DA-15-PU65_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206551
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A116-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
3-methylglutaconic aciduria with cataracts, neurologic involvement and neutropenia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.005
EA-09-HM95_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.576881
GD-46-OD81_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.269052
B-lymphoblast	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.734
Obesity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.233
interstitial nucleus of Cajal, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.879838
Caudate nucleus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.266
Appendix	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.19517
Pancreatic adenocarcinoma_PAAD_TCGA-LB-A8F3-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
male reproductive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
TBL1XR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A65B-01A-12R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
striatum_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.881729
LC4-1	GDSC Cell Line Gene Expression Profiles	-1.0	-1.70574
SG in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.02243
inferolateral temporal cortex (area TEv, area 20)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.874979
H3K4me3_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HE-99-KP87_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.538439
tretinoin_homo sapiens_gpl6244_gds4180	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Medial geniculate complex, ventral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.04158
intrinsic component of membrane	GO Cellular Component Annotations 2015	1.0	null
AB-33-EM56_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.47661
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE166783_1_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
6947_PUF60_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.619157
HESX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	14.8203
CHD4	ENCODE Transcription Factor Targets	1.0	null
HE-95-KK46_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.304979
GSE104508_2_v_3_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MCF7_Obatoclax Mesylate_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0181974
EGR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nonalcoholic fatty liver disease	WikiPathways Pathways 2024	1.0	null
LP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.823916
POLR2A_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HT1080	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.17142
FA-92-JL46_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.24833
EF-83-OP68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.216778
CTBP2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CCNT2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBP_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE172146_2_v_1_mettl1_human	RummaGEO Gene Perturbation Signatures	1.0	null
adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.650154
LE-94-HL75_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.336701
KA-37-GD83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.243625
CEBPB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle inner membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
FOXP2_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DUT	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.52515
H3K27ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCT-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.67146
BHY	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
layer 1 of PrS	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.05029
NR2F2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-431	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.917933
Vinblastine	CTD Gene-Chemical Interactions	1.0	null
MOLM-13	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	3.11459
hematopoietic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059159
Brain Lower Grade Glioma_LGG_TCGA-FG-A6IZ-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AN3CA cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.542
hsa-miR-30c	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.0155
Perturb_10868_KO_Ghr_SRP269490	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.71803
MF-17-BD63_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.670849
Perturb_11659_KD_PEO1_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.8487
GATA2-22383799-G1ME-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.374068
EP300_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-J4-A67O-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
upper (rostral) rhombic lip_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.954205
Astrocytoma_CNS - Brain (MMHCC)_GSE4290	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.66159
PMC3290552-pone.0032232.s006.xls-MUC4-KD_vs_Mock-Unnamed_3_AR	Rummagene Transcription Factor Associations 2026	1.0	null
SKMEL2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.94168
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.18907
EA-09-HM95_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201112
hepg2	HPA Cell Line Gene Expression Profiles	1.0	1.15731
H2AFZ_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXP2_SK-N-MC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCL3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-X6-A7W8-01A-21R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.599273
9804_WDR12_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.850654
superficial layers of olfactory entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.01767
H3K79me2_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
16081686-SuppTable4	GeneSigDB Published Gene Signatures	1.0	null
HMGN3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Drug-Induced Liver Injury	CTD Gene-Disease Associations	1.0	1.72633
H3K4me3_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GATA1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEx AdiposeTissue 20-29 vs 50-59	GTEx Tissue-Specific Aging Signatures	-1.0	-12.8473
Disease of metabolism	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.659
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A3CJ-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BE-79-QU25_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.553777
Diabetic cardiomyopathy	KEGG Pathways 2026	1.0	null
MDAMB134VI	CCLE Cell Line Gene CNV Profiles	1.0	2.11471
NELFE_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POR_KO_GDS1678_763_mouse_Liver	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE158197_5_v_4_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Cognition Disorders	CTD Gene-Disease Associations	1.0	1.14747
TMEM70	Pathway Commons Protein-Protein Interactions	1.0	null
AB-85-JR73_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203997
HF-91-IU60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.742386
Suprageniculate nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.18842
HMGN3	ENCODE Transcription Factor Targets	1.0	null
GSE211286_4_v_6_tcf12_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EFM-19	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09465
GSE220058,GSE220059_0_v_1_prrc2b_human	RummaGEO Gene Perturbation Signatures	1.0	null
HC-01-FD24_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.319885
SNU-216	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.864622
CTCF_GM12864_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-58-RM63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.28208
EP300_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BB-83-OX58_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.278298
Lung squamous cell carcinoma_LUSC_TCGA-60-2726-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A549_CUDC-101_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0186795
rectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.250301
Papillary thyroid cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.586
CTCF_fibroblast of skin of abdomen_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AA-39-BD24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.27927
SNU1196	CCLE Cell Line Gene Expression Profiles	-1.0	-1.97937
TTC9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10828
abnormality of the immune system	GWASdb SNP-Phenotype Associations	1.0	0.059403
XRN2-22483619-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE165689_0_v_1_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ovary	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE201239_0_v_7_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
8552_STX18_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.584852
H3K4me1_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC11925450-elife-96850-supp2.xlsx-DNMT1_KO_vs_DNMT1_L1TD1_dKO_res-Unnamed_0_DNMT1	Rummagene Transcription Factor Associations 2026	1.0	null
MZ in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.5098
GSE119978,GSE180930_6_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
orbital frontal cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.971949
GSE222445_2_v_1_ethanol_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTF2B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9682_UTP15_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.588101
Adenoma, Liver Cell	CTD Gene-Disease Associations	1.0	1.13655
excretory gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Atrophy	CTD Gene-Disease Associations	1.0	1.05498
4950_MED27_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.02368
E2F6_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
digestive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
AR-19668381-PC3-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
NDUFA13	Pathway Commons Protein-Protein Interactions	1.0	null
alimentary canal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
endothelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.088973
Agranular insular area, dorsal part, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27781
HNF4G_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DE-85-FR73_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.264997
COLO 857	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.99934
GSE119978,GSE180930_2_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE228106_3_v_5_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
mantle zone of r2Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.56389
COLO 680N	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5376
SMC3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DLD-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.52694
STAT3	ENCODE Transcription Factor Targets	1.0	null
TYK-NU	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.02955
H3K9ac_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
PMC5637904-PATH-243-193-s016.xlsx-human_down_in_fat_SOX11-Unnamed_6_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
superficial stratum of r2Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.76082
lateral hypothalamic area, anterior part	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.17891
POU2F2_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182179_0_v_1_kdsr_human	RummaGEO Gene Perturbation Signatures	1.0	null
BE-92-TW08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.271019
Adrenocortical carcinoma_ACC_TCGA-OR-A5LA-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PB-66-RW16_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.223641
CA-68-KG29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296822
ZNF75A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.0012
medial superior olive	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.23466
5089_NIFK_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.688214
PMC11743796-41420_2025_2295_MOESM5_ESM.xlsx-aged_LPS_BV-2_vs_human_upreg-human_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
CAL 54	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.40655
Synucleinopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.446
NDUFS5	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7304-02A-12R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6740_PREB_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.11432
6219_PES1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.680123
uterus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.06955
female reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PMC10661700-41525_2023_383_MOESM2_ESM.xlsx-Supp_Table6_gnomAD_EUR_GCR-SYMBOL_NR3C1	Rummagene Transcription Factor Associations 2026	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.20542
19204204-SupplementaryTable1	GeneSigDB Published Gene Signatures	1.0	null
Nucleus prepositus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.03883
GFI1B	ChEA Transcription Factor Targets	1.0	null
GSE196699_0_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BD-69-GX17_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.26895
GSE169590_0_v_1_rptor_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ELAVL1	Pathway Commons Protein-Protein Interactions	1.0	null
SCC15	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34887
cell part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.174635
H3K4me3_fibroblast of the aortic adventitia_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
FOXA2_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Infralimbic area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.29307
occipital neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.984059
BD-27-CC87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.73688
USF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043878
GSE197571_3_v_1_foxm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
HA-38-ML65_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.539256
lymphoid cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069715
PBX3	ENCODE Transcription Factor Targets	1.0	null
r9 portion of the hypoglossal motor nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.93693
hsa-miR-4717-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
inferolateral temporal cortex (area TEv, area 20)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.0057
CBX3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
smoothmuscle_8a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.02512
USF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
K562_Mesna_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0143291
POLR2AphosphoS5_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ovarian disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.021
REST_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RE-97-MC55_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.218965
chr11_78058756_A_G_b38	GTEx eQTL 2025	1.0	1.8264
BC-06-OP01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.230176
germ layer	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
RAD21_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K74305673_IMD 0354_PL21_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
BA-41-QF30_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.227855
MCF7_Disulfiram_10µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0177707
LRRC73	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1804
WC-75-IK59_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231395
cerebellar cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.3396
Perturb_11628_KD_ERCC3_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.2543
superficial stratum of r4Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.72663
K562_Gandotinib_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0174097
Neutrophil degranulation	Reactome Pathways 2024	1.0	null
GC-04-UF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.618562
RUNX1	ChEA Transcription Factor Targets	1.0	null
BRD-K95858622_NCGC00182609-01_HT29_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE146074_10_v_3_ly6e_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SUM52PE	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.05325
NCI-H28	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.04336
METRNL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16881
JM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE	CCLE Cell Line Proteomics	1.0	4.19846
VA-ES-BJ	GDSC Cell Line Gene Expression Profiles	-1.0	-1.75142
NAD	HMDB Metabolites of Enzymes	1.0	null
MXI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
KYSE-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04299
GSE213048_1_v_2_irf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
2127_DDX51_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.572387
GSE158969_1_v_0_trastuzumab_human	RummaGEO Drug Perturbation Signatures	1.0	null
Acute Chest Syndrome	DisGeNET Gene-Disease Associations	1.0	null
Perturb_15142_KD_LINC00473_SRP257261	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-7.70185
H3K4me3_fibroblast of gingiva_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Cingulate cortex	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.208
KMS-12-BM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.827429
CTCF_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE213588_8_v_2_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Lymphocytic leukemia cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
CHD2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
8898_THUMPD1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.619948
BRCA1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SB-92-FF15_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.444242
chr11_78108572_A_G_b38	GTEx eQTL 2025	1.0	1.90838
GSE184087_2_v_1_tert_human	RummaGEO Gene Perturbation Signatures	1.0	null
RKO-E6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.06097
MZ in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.19216
TMEM130	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24837
TAF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE232223_1_v_0_letmd1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
superficial stratum of JcPL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.76162
thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.085226
TAF1_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Muscle myosin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.904
MAFF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Agranular insular area, ventral part, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.12864
anterior (rostral) cingulate (medial prefrontal) cortex_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.41378
DA-07-LL18_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.403988
KA-51-CQ55_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.22666
SP1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RACK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.7029
2622_EMG1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.665004
H3K4me1_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
aerobic respiration	GO Biological Process Annotations 2025	1.0	null
2568_EIF4G1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.519858
SPI1-20517297-HL60-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
6855_PSMB6_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.828435
GSE233679_5_v_9_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
FOXA2_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MA-64-FB16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.565609
GSE169590_6_v_1_rptor_human	RummaGEO Gene Perturbation Signatures	-1.0	null
retroparafascicular area of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.72986
1941_CTPS1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.533711
H3K4ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
TCF12_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Retrosplenial area, lateral agranular part, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-3.5056
K562_Thiotepa_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0170975
IA-76-ZU47_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.33386
MXI1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
urinary system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
single-organism process	GO Biological Process Annotations 2015	1.0	null
TP63-22573176-HFKS-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
KB-78-BE93_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.845369
outer portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.69845
Preadipocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.552
RPL14	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.73233
ATF3_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COV318	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.029
ChIP_GCN5_20946988	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
posterior hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.14908
IB-87-ZR37_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.230212
Learning Disorders	CTD Gene-Disease Associations	1.0	1.20295
whole body	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
colon	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
valproic acid_homo sapiens_gpl96_gds1050	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE182181_1_v_0_ricolinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
CRCGN011_HEPG2_24H:C24	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.2424
cerebellar cortex_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.87929
superficial stratum of DG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.401
Amnioserosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.967
Lung adenocarcinoma_LUAD_TCGA-05-5420-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CB-31-UO16_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.27515
H3K4me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TP53	ChEA Transcription Factor Targets	1.0	null
magnocellular division of VA	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.4128
HDAC2_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12238561-42003_2025_8460_MOESM2_ESM.xlsx-IDs_S23_LF_C1_24h-Unnamed_5_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
mitochondrial electron transport, NADH to ubiquinone	GO Biological Process Annotations 2023	1.0	null
CFPAC1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.48162
CE-17-FI51_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20703
EPLC-272H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.15081
EC-67-PV87_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.959131
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E20-D3_1775_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
KB-78-BE93_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.417793
TBP_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Entorhinal area, lateral part, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.49107
KDM5B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CE-15-DU45_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.286349
Small_Intestine	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.09687
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
internal granular layer of CbVCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.19527
basal ventral medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.987313
H3K4me2_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_HCT116_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
JUN_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AR-21915096-LNCAP-1F5-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Vesicle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
DF-84-RT50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.218115
CD-35-BD44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.326164
POU2F2	JASPAR Predicted Transcription Factor Targets	1.0	null
PMC7149918-12974_2020_1781_MOESM1_ESM.xlsx-Table_S7_CEBPB_Astrocyte_marker-Symbol_CEBPB	Rummagene Transcription Factor Associations 2026	1.0	null
OV-90	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.05665
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
NCOR1	ENCODE Transcription Factor Targets	1.0	null
GSE183271_4_v_3_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
mitochondrial membrane	GO Cellular Component Annotations 2025	1.0	null
H3K4me3_kidney epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TAF7_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OB mitral cell layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.21354
DC-22-HS83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.225993
10623_ZNF774_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.646651
Cell Transformation, Neoplastic	CTD Gene-Disease Associations	1.0	1.0561
GSE176008_4_v_1_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-7269-01A-11R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CE-18-AP85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.438435
POLR2A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SPRY4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25298
primary motor-sensory cortex (samples)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.39852
1545_CHAF1B_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.523445
GSE208254_3_v_1_irf8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Taenia tecta, dorsal part, layer 2	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08958
GSE200352_10_v_6_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE166783_3_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
FOXP1-21924763-HESC-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
NELFE	ENCODE Transcription Factor Targets	1.0	null
alimentary canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.250301
EOMES-20176728-TSCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Proteinuria	CTD Gene-Disease Associations	1.0	1.12906
FF-89-KK36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.268473
15902281-TableS1b	GeneSigDB Published Gene Signatures	1.0	null
HF-57-QB74_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.254451
GE-01-QX17_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.386764
GSE147613_1_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
medial geniculate nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.11305
Diabetes mellitus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.423
1971_CWC15_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.772973
POLR2A_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRIM28_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Accessory olfactory bulb, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-3.15454
cardiovascular system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.070578
T-lymphocyte	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.178
GSE121824,GSE121826_0_v_8_scaf8_human	RummaGEO Gene Perturbation Signatures	-1.0	null
variants	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CREB1-26743006-CHIP-SEQ-LNCAP-ABL-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-6971-01A-11R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6791_PRPF18_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.09627
DA-27-BW40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.457259
Medial geniculate complex	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.1232
ELK1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD7	ENCODE Transcription Factor Targets	1.0	null
mitochondrial respiratory chain complex i	GO Cellular Component Annotations 2015	1.0	null
KDM1A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OC-314	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.00844
Head and Neck squamous cell carcinoma_HNSC_TCGA-P3-A6T3-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
small intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
medial preoptic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.19396
breast cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.097713
H3K4me3_retinal pigment epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
HDAC2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 852.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.05401
2765_ETV5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.508652
Infralimbic area, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.16324
Nitrate reductase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.734
PSMD12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.84095
LA-42-ER00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.34523
eye	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059712
leukocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057367
mitochondrial respiratory chain complex I assembly	GO Biological Process Annotations 2025	1.0	null
KD-86-AJ75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.220946
496100625_FWM_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.06972
Corpus striatum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.266
SCA1_Knock-in_GDS1756_233_mouse_Forebrain tissue - 4 weeks of age	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
SARS-BatSRBD_84Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.56761
superficial stratum of r3Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.10112
MAZ	ENCODE Transcription Factor Targets	1.0	null
ZMIZ1	ENCODE Transcription Factor Targets	1.0	null
KIT_activemutant_55_GSE17743	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.1346
PMC6352376__F4	PFOCR Pathway Figure Associations 2024	1.0	null
KA-29-AB08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.788356
GC-04-UF36_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.826815
H3K4me1_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE147240_3_v_7_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
catalytic activity	GO Molecular Function Annotations 2015	1.0	null
PPARD-21283829-MYOFIBROBLAST-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
EF-80-OD07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.252591
Disease Progression	HuGE Navigator Gene-Phenotype Associations	1.0	null
ARID3A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A549_2-Methoxyestradiol_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0131514
GSE114992,GSE114993_0_v_5_irf5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
3667_HDAC7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.576164
Cerebral peduncle	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.595
proton-transporting two-sector ATPase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.673
H3K27ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CE-17-FI51_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.313975
CDX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.0632
catalytic complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.045193
REST_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
azurophil granule	GO Cellular Component Annotations 2023	1.0	null
STAT3_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDS - Myelodysplastic syndrome_Bone marrow stem cell_GSE2779	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.50782
PMC4344782__F10	PFOCR Pathway Figure Associations 2024	1.0	null
BRD-K78883024_NCGC00184713-01_A549_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
calcium	GeneRIF Biological Term Annotations	1.0	null
rostral (anterior) extramural migratory stream	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3037
sense organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055445
ID-69-QF93_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.323603
GSE221932,GSE222115_0_v_1_ezh2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Heart	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.00146
H3K4me3_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
calu-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.941785
BD-96-HO33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.602537
gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
EA-00-QR36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.213336
Metabolic dysfunction-associated steatotic liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.005
Fetal Death	CTD Gene-Disease Associations	1.0	1.17629
1399_CDC40_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.53176
CF-22-IS33_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244633
PF-39-DY68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.208073
OCI-M2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.46822
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_1_TRC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
SLC25A3	Pathway Commons Protein-Protein Interactions	1.0	null
TAL1-22897851-JUKARTE6-1-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
EBF1	ENCODE Transcription Factor Targets	1.0	null
BA-56-QV45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.787067
PD-60-FM93_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.282578
reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.044262
DB-34-QA60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.302182
PMC5577301-in-17-237-s002.xls-AR_down_signature-AR_down-regulated_signature_genes_32_AR	Rummagene Transcription Factor Associations 2026	1.0	null
cellular_component	LOCATE Curated Protein Localization Annotations	1.0	null
H3K4me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GATA3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18924
NDUFS1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_Panc1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
7164_RBM22_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.511075
SNU-668	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.24421
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.6661
ZR-75-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.59356
PMC7491318__F11	PFOCR Pathway Figure Associations 2023	1.0	null
NADH dehydrogenase (ubiquinone) activity	GO Molecular Function Annotations 2023	1.0	null
Respiratory chain complex I (holoenzyme), mitochondrial	CORUM Protein Complexes	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03829
hippocampus (hippocampal formation)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.36416
catalytic complex	GO Cellular Component Annotations 2015	1.0	null
IGROV-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.49221
SNU-668	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
GSE129389_0_v_5_tropifexor_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
BHLHE40_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
metabolism	GeneRIF Biological Term Annotations	1.0	null
eGFP-GATA2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBP_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GA-47-MH68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.385589
basomedial nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.7143
H3K4me3_cardiac mesoderm_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6875_PSMD7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.555625
H3K4me3_cardiac fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Agranular insular area, dorsal part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.54531
orbital frontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.881223
POLR2AphosphoS2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
blood vessel	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079068
ZNF143_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AB-32-QZ50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.202981
ZBTB7C	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.5086
TEAD1	JASPAR Predicted Transcription Factor Targets	1.0	null
exercise	GeneRIF Biological Term Annotations	1.0	null
Lysosome	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
pulmonary artery endothelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.574816
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.604
SIX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.898
POLR2AphosphoS5_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lymphoid cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.07308
8853_TFIP11_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.19062
PML	ENCODE Transcription Factor Targets	1.0	null
GSE193258,GSE193259_9_v_0_osimertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
BD-60-ZK54_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.25564
GSE190384,GSE190386_0_v_8_fulvestrant_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE145311_0_v_2_glutathione_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CC-03-PW00_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.444503
HA-29-ZM35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.258416
AD-42-OW73_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.34776
reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
C2BBe1	GDSC Cell Line Gene Expression Profiles	1.0	1.91087
IGR1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36519
NFIC	ENCODE Transcription Factor Targets	1.0	null
MTA3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
olfactory bulb	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.03438
POLR2AphosphoS2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VMRC-LCD	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.13882
Cob	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.626
carcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.90924
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.6595
ZNF143	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.6152
GSE158834_7_v_3_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Secondary motor area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.13987
TEAD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.223
GSE195582_0_v_1_pim1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
METFORMIN HYDROCHLORIDE	DGIdb Drug Targets 2026	1.0	0.326741
captopril_mus musculus_gpl1261_gds3683	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE182680,GSE182683_5_v_4_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
INO80	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0542
colonic cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.226411
ZNF750_KD_GDS4599_177_human_HaCaT keratinocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
COLO 857	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.52364
azurophil granule membrane	GO Cellular Component Annotations 2023	1.0	null
mitochondrial membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
EGR1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
USF2	ENCODE Transcription Factor Targets	1.0	null
H3K9me3_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24948
YMB-1-E	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.593
r3 part of cochlear sensory column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.03841
vascular endothelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.106221
GSE210580_3_v_2_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AC-36-TL21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.377973
DD-47-GB64_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.267035
POLR2A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EF-99-HJ48_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.209847
PL-21	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.933981
GSE151090_2_v_1_verteporfin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EA-18-FP00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.781527
layer II of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.01358
troglitazone_rattus norvegicus_gpl341_skeletal muscle_gds3850	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
H3K4me3_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MZ in dorsomedial extrastriate cortex (V2)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.27497
central nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.894919
lateral ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.65399
Respiratory electron transport	Reactome Pathways 2014	1.0	null
H3K4me3_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
E2F4-21247883-LYMPHOBLASTOID-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
DA-18-QP05_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.427257
Lung Neoplasms	CTD Gene-Disease Associations	1.0	1.16302
mitochondrial ATP synthesis coupled electron transport	GO Biological Process Annotations 2023	1.0	null
Medial geniculate complex, dorsal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.67372
posterior (caudal) superior temporal cortex (area 22c)_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.0782
Parenchyma	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.449
GSE158834_12_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EHF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.8394
REST_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.43338
SC-76-YF40_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.316757
PMC3607232-mmc1.xls-MLLN_prom_RS411-MLL_prom_RS411_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
large intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
GA-04-SF76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.343352
CTCF_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-MH-A857-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SIN3A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bronchial epithelial cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
RAD21_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-R3-A69X-01A-22R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JA-85-SW39_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.818159
YY1_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE121866_1_v_3_six4_human	RummaGEO Gene Perturbation Signatures	1.0	null
ELF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mitochondrial iron-sulfur cluster assembly complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.502
Kidney renal papillary cell carcinoma_KIRP_TCGA-IZ-A6M8-01A-11R-A31O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MF-17-BD63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.326384
3866_HNRNPH1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.540336
1206_CASP8AP2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.618766
NADH dehydrogenase complex assembly	GO Biological Process Annotations 2025	1.0	null
6791_PRPF18_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.85234
PMC10661700-41525_2023_383_MOESM2_ESM.xlsx-Supp_Table2_ChinaMAP_GCR-SYMBOL_NR3C1	Rummagene Transcription Factor Associations 2026	1.0	null
ovary_8a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.42835
POLR2A_GM18951_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_K562_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.181823
AA-49-BD04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.233467
TCF12_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
8853_TFIP11_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.715144
5658_NFYC_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.835084
Combined oxidative phosphorylation deficiency	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.003
H2BK12ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
8656_TAF1A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.543219
Nucleus of the brachium of the inferior colliculus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28954
CC-18-YW57_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.364439
NDUFA12	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
JD-44-KF86_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.04263
lymphoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.074205
TRIM24_knockout_298_GDS3087	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.66312
thyroid	GeneRIF Biological Term Annotations	1.0	null
19643001-Additional-File2	GeneSigDB Published Gene Signatures	1.0	null
ZMAT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06543
KAT2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RNF25	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.17247
GSE158320,GSE183351_0_v_3_lin28b_human	RummaGEO Gene Perturbation Signatures	1.0	null
Syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.033
H3K4me3_GM12864_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF7_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Primary motor area, Layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.38929
GSE100316_5_v_2_mtor_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HF-57-QB74_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.35911
corpus callosum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0768
NCIH1435	CCLE Cell Line Gene CNV Profiles	1.0	2.55974
POLR2A_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMC3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nervous system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
H3K4me3_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AB-30-CR11_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.323118
Dentate gyrus, molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.3499
GSE119345_2_v_3_bexarotene_human	RummaGEO Drug Perturbation Signatures	-1.0	null
DCP1A	ChEA Transcription Factor Targets	1.0	null
9461_TXN_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.512919
6872_PSMD4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.54577
GSE239844_11_v_9_crizotinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
erg_19359602_huvec_lof_human_gpl570_gds3557	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.459972
lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.705949
GSE102870_11_v_9_nr1h4_human	RummaGEO Gene Perturbation Signatures	1.0	null
capillary endothelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.28107
HCV JFH1_120Hour-Huh7_5_1_None_GSE29889	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.01453
Organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
SETDB1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10969083__F7	PFOCR Pathway Figure Associations 2024	1.0	null
Atrium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.478
Mitochondrial small ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.333
posteroventral (inferior) parietal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.08336
Kidney renal papillary cell carcinoma_KIRP_TCGA-AL-A5DJ-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dorsolateral prefrontal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.71787
cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
ENTREP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.36536
Nephritis	CTD Gene-Disease Associations	1.0	1.02559
Malignant mesothelioma of pleura_Pleura_GSE2549	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.75376
CRCGN015_MCF10A.TP53.M_24H:J20	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.20475
SG in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.993549
disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.03965
GSE233679_12_v_0_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
planum polare, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.827921
oocyte	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.7084
POLR2AphosphoS5_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CB-49-OG36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.504234
H3K4me3_brain microvascular endothelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
dlx4_00000000_mcfdash7_gof_human_gpl201_gse21657	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	1.65382
GSE114690_2_v_3_tnfsf14_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Mitochondrial complex I deficiency	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.973
EIF4EBP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.60356
Prelimbic area, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.13198
NCI-H82	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00523
MZ in posteroventral (inferior) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.915371
CC-91-RO81_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.239888
primary motor cortex (area M1, area 4)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.2103
USF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Oxidoreductase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.376
MYBL2_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ES-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.0907
cuneate nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.38183
TAF1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CD4_Naive_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.77625
TCF7L2_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE102505_4_v_2_tunicamycin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CC-90-FE70_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.294122
MTA3	ENCODE Transcription Factor Targets	1.0	null
primary auditory cortex (core)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.11538
Prelimbic area, layer 2	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.03881
496100639_TCx_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.22798
Nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.065
ZFX-18555785-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MAFK_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AF-11-IL39_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.350753
Organelle envelope	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GSE217363_5_v_1_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
9969_ZBTB11_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.677961
H3K4me3_kidney epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_astrocyte of the cerebellum_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
cerebellar cortex_4 mos_M_12890	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.00411
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-5973-01A-11R-1686-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
trunk	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GSE116810_5_v_4_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
throat	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
HDAC1	ENCODE Transcription Factor Targets	1.0	null
Sarcoma_SARC_TCGA-MB-A5Y8-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EE-03-SG02_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.245185
EC-17-MF19_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.712916
MEWO	CCLE Cell Line Gene CNV Profiles	1.0	1.56884
XA-12-UL84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.645638
VC-19-YG34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.248537
8126_SLU7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.6815
H3K4me3_brain microvascular endothelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Follicular thyroid cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.646
r3 part of dorsal parvicellular reticular formation	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.18379
BRD-K68174511_torin-2_MCF10A_3_h_0.12_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
6513_POLA2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.608132
nasopharynx	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
QF-00-NO42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.59678
8855_TFPT_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.76866
AE-56-SL06_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.41276
LF-33-KO15_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.272438
H3K4me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H929	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.873226
Supplemental somatosensory area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.14899
EW-18	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.42356
8154_SMARCE1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.502676
hilus of the DG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0935
GSE112860_9_v_8_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00696
TCFAP2C-20176728-TROPHOBLAST-STEM-CELLS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
POLR2A_GM12892_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-4494-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_11746_KO_Mek2_SRP321493	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.41018
SCC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.848027
corpus callosum	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.38011
AD-82-OW73_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206029
Heart ventricle	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.599
SUIT-2	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.78627
external granular (germinal) layer of upper rhombic lip	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.69896
6071_PARK7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.723557
MYC_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDAMB157_BREAST	CCLE Cell Line Proteomics	1.0	3.03214
Accessory olfactory bulb	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.83323
Lung squamous cell carcinoma_LUSC_TCGA-77-8009-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BE-46-FY47_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.338707
YY1_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mitochondrial membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
H3K4me1_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
WE-48-PP43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.1058
GATA1_G1E-ER4_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_BE2C_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JE-72-KV75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.60994
CC-18-YW57_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.436175
RE-97-MC55_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.435676
SRF_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intermediate portion of DFC (area 9/46)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.855033
GSE203158_5_v_8_aire_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2AphosphoS5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AR-19668381-PC3-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE214931_3_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC7987945__F6	PFOCR Pathway Figure Associations 2024	1.0	null
PML_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FE-82-WB22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.354927
alveolar wall	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.233731
Ganglion	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
r9 part of the inferior olive	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.99286
posterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.52778
MICOS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.577
SNU1079	CCLE Cell Line Gene CNV Profiles	1.0	1.87147
ventral reuniens nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.14495
RC-21-IF98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.644485
POLR2A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPARD	ChEA Transcription Factor Targets	1.0	null
H3K27ac_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Mdr2_KO_GDS1990_285_mouse_Livers of 3 month old	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
SMARCC1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FC-67-SZ42_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.232675
PMC10319804-41467_2023_38747_MOESM9_ESM.xlsx-KHSRP_KD_genes_down-gene_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
KSR2_knockout_60_GSE17923	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.98872
HCFC1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	1.0	2.37345
Mitochondrial DNA depletion syndrome 9	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.369
Prostatic Neoplasms	HuGE Navigator Gene-Phenotype Associations	1.0	null
chromosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.166167
POLR2AphosphoS5_U-87 MG_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-XF-A8HF-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
brain	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
cervical cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.138228
6793_PRPF31_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00582
GSE179531_1_v_0_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EKVX	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.35377
H3K4me1_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
A2780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.01074
GSE144231_2_v_1_cxcr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SARS-CoV MA15_Day4_None_GSE49263	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.43388
POLR2A_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE248858_6_v_0_tcpobop_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
BE-48-IT75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212372
Bladder Urothelial Carcinoma_BLCA_TCGA-ZF-A9R7-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
periventricular stratum of OB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.60729
JC-96-ID26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.535797
GSE120370_0_v_6_thrombin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-FF-8043-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CC-21-IE22_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.26772
HUH28	CCLE Cell Line Gene Expression Profiles	1.0	1.9865
6870_PSMD2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.643275
ALL-PO	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.47859
CTCF_endothelial cell of umbilical vein_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PHF8-20622854-HELA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
TBP	ENCODE Transcription Factor Targets	1.0	null
SKG-IIIa	GDSC Cell Line Gene Expression Profiles	1.0	2.41052
TT	GDSC Cell Line Gene Expression Profiles	1.0	1.84231
Hypothalamus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.642
KC-71-KK26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.225192
UQCRQ	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.55736
COLO792	CCLE Cell Line Gene CNV Profiles	-1.0	-2.68476
cerebellar cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.35685
H2BK120ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE171837_3_v_2_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
SIN3A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cardiac muscle	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Bladder Urothelial Carcinoma_BLCA_TCGA-CU-A0YN-01A-21R-A10U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JD-87-KA71_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214527
Fever	CTD Gene-Disease Associations	1.0	1.08797
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7418-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mediodorsal nucleus of thalamus_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03829
CTCF_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_skeletal muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CC-03-PW00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244548
BB-08-WM33_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.356338
H3K4me1_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZBTB33	ENCODE Transcription Factor Targets	1.0	null
PK-45H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.19613
9686_UTP3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.782347
KC-15-HM70_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.301667
AD-72-RI24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.27476
BC-75-CK91_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.239288
lateral habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.42119
cingulate gyrus, retrosplenial part, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.846005
BICR22	CCLE Cell Line Gene Expression Profiles	-1.0	-2.37434
EZH2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DYNLT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.20074
GSE159446,GSE159449_1_v_0_tunicamycin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
primary visual cortex (striate cortex, area V1/17)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.02948
nadh dehydrogenase (ubiquinone) activity	GO Molecular Function Annotations 2015	1.0	null
SIN3A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
anterior pretectal nucleus, ventral superficial part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28266
CCD-19LU cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.141
ELF1_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Respiratory chain complex IV	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.916
NOP9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24114
MYC	ENCODE Transcription Factor Targets	1.0	null
NCI-H596	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.64942
MYC_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE169697,GSE169725_0_v_4_prrx1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MYBL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.3268
POLR2A_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_keratinocyte_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
forebrain	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
FA-16-HR75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.300898
inner CP in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.864038
GSE195503_1_v_2_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BE-17-CS60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.298397
182_AGBL5_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.559528
AE-13-CX28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.540916
FD-20-OG99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296347
primary somatosensory cortex (area S1, areas 3,1,2)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.47358
Perturb_11640_KD_ITCH_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.59401
H3K79me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_BE2C_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EEIG1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24247
Endomembrane system	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
cerebellar cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.58409
Edema	CTD Gene-Disease Associations	1.0	1.50473
GSE175787_5_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
LA-69-OL77_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.277817
hsa-miR-3124-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HNF4A	ChEA Transcription Factor Targets	1.0	null
viscus	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Gastric cecum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.584
Main olfactory bulb	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.07862
496100640_PCx_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.25999
H3K4me3_CH12.LX_mm9_5	ENCODE Histone Modification Site Profiles	1.0	null
LS-411N	GDSC Cell Line Gene Expression Profiles	-1.0	-1.76293
muscle	GeneRIF Biological Term Annotations	1.0	null
Leukemia cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
H3K4me1_Muscle Satellite Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
AC-30-XU83_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.83519
Adenocarcinoma	DisGeNET Gene-Disease Associations	1.0	null
GSE155567_3_v_0_cd33_human	RummaGEO Gene Perturbation Signatures	-1.0	null
7426_RPF1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.608024
r6 part of nucleus prepositus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33182
7734_SEC13_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.600892
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-A4CD-01A-21R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-618	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
BCLAF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tonsil	HPA Tissue Gene Expression Profiles	-1.0	-0.834423
SK-MEL-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.23326
r3 part of trigeminal transition zone	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.10572
6537_POLR1D_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	1.62728
GSE213588_10_v_13_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
6862_PSMC5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.560106
MCF7_Prednisone_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0150458
EA-17-BY69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.264524
ZFX	ChEA Transcription Factor Targets	1.0	null
MYC_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KA-81-AG66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.601531
ATF2_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K99749624_linifanib_MCF10A_3_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
ASH2L-23239880-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
JD-01-RA07_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.207986
H3K4me3_fibroblast of lung_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
E2F6_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FD-91-OK66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.961771
yy1_22711985_skeletal_muscle_lof_mouse_gpl8321_gse39009	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.190448
H4K20me1_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Cells - Cultured fibroblasts	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.869567
GSE242555_1_v_0_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCC515	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.521
YY1_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hydrocortisone_homo sapiens_keloid scar_gds3071	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GABPA	ENCODE Transcription Factor Targets	1.0	null
H3ac_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PHGDH	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.27096
IRF6_KO_GDS2359_126_mouse_skin E17.5	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
laminin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.207451
A-Vietnam-1203-2004(H5N1)_2day-IDO1KO_None_GSE40792	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.71089
Lung adenocarcinoma_LUAD_TCGA-50-5068-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
K562_IOX2_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0189915
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34905
Parapyramidal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.50121
6026_PABPN1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.82136
1301_CCDC86_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.635954
CTCF_GM12869_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IGROV-1	GDSC Cell Line Gene Expression Profiles	-1.0	-1.60398
Huntington disease	KEGG Pathways 2026	1.0	null
HD-18-YL30_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.444281
PHF8	ChEA Transcription Factor Targets	1.0	null
KYSE-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.884796
GSE168797_2_v_3_cannabidiol_human	RummaGEO Drug Perturbation Signatures	1.0	null
4684_LSG1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.568088
GSE100863,GSE100864_3_v_0_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GC-29-JC76_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.218836
Prostate adenocarcinoma_PRAD_TCGA-HC-7211-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE140322_3_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
mantle zone of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09745
H2AFZ_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
lysosomal membrane	GO Cellular Component Annotations 2025	1.0	null
Perturb_14392_KD_MECOM_SRP276625	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.75449
parolfactory gyri, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.39593
GSE227592_13_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
Occipital lobe	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.361
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.45219
Hepatobiliary disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.014
MBD4	ENCODE Transcription Factor Targets	1.0	null
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.24304
3050_FDPS_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.666932
KAT2B	ENCODE Transcription Factor Targets	1.0	null
abnormality of immune system physiology	GWASdb SNP-Phenotype Associations	1.0	0.096527
GA-48-JB51_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.253156
A549_Cyclocytidine HCl_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0125073
2781_EXOC4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.561385
ND-54-FY31_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238079
central medullary reticular group, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.893705
GSE169356_2_v_1_ivermectin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_Caco-2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
NCIH1395	CCLE Cell Line Gene CNV Profiles	1.0	1.45867
colorectal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.166532
ZE-45-CG69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.535752
CHD2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GE-26-BO33_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.219957
E2F6_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Parietal lobe	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.229
PMC11237033-41419_2024_6873_MOESM3_ESM.xls-Supplementary_Appendix_2-HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
SUZ12_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_GM12866_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BC-62-RZ55_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.280803
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-A6D8-01A-31R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Neuropathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.092
GSE213588_8_v_12_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
eGFP-HDAC8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
orbital frontal cortex_4 mos_M_12890	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.917402
NCI-H1581	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.06999
intracellular membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.156863
Pheochromocytoma and Paraganglioma_PCPG_TCGA-TT-A6YO-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RUNX2-24655370-MC3T3E1-MOUSE-BONE	ChEA Transcription Factor Targets 2022	1.0	null
AD-66-NO48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.266815
APOD_OE_GDS3913_489_mouse_Cerebellum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-Q1-A73R-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC10550934-41467_2023_41927_MOESM4_ESM.xlsx-degenes_beatAML_CEBPA-NT_Fig1c-Gene_Symbol_CEBPA	Rummagene Transcription Factor Associations 2026	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-GN-A26D-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-30d	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
IA-41-GR68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203373
6280_PHF12_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.511258
lung adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.472704
BB-44-SX65_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.31569
XD-03-FM54_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.357624
DD-47-GB64_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.40813
BRD-A16311756_ETHOPROPAZINE HYDROCHLORIDE_A549_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE211262,GSE211263_2_v_1_pbrm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-4328	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
AD-41-WB70_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.314219
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UBTF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE88819_5_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H2AFZ_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7713_SDAD1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.66239
organelle part	GO Cellular Component Annotations 2015	1.0	null
ALKBH8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05392
Perturb_14965_OE_miR424_SRP341198	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.65046
GSE158834_1_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
blastocysts	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.00333
GF-35-IT27_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.520297
DA-27-BW40_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.266256
CiliaryGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.868906
18535662-TableS2b	GeneSigDB Published Gene Signatures	1.0	null
H3K9ac_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me3_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
BRD-A60245366_-666_PHH_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
SCC-25	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.49049
RAD21_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE213588_9_v_13_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
WB-92-TT14_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.354084
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.920278
A549_UNC0379_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0118135
PMC7616765-EMS198548-supplement-Data_S2.xlsx-3_DEG_2D_and_3D-D9_Up_in_2D_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_WI38_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
esrra_19901197_kidney_lof_mouse_gpl1261_gse16623	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.596725
Lung adenocarcinoma_LUAD_TCGA-49-4514-01A-21R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A498	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.09053
CTCF_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MIR122_OE_GDS3470_573_human_Embryonic stem cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
D-336MG	GDSC Cell Line Gene Expression Profiles	1.0	1.74375
tuberomammillary nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.992928
caudal ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.18645
CRCGN015_MCF10A.TP53.M_24H:E09	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.22633
TRAPPC6B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14392
8232_SNRPF_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.703115
7526_RPS4X_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.629728
H3K4me3_bronchial epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CHD1	ENCODE Transcription Factor Targets	1.0	null
GSE158834_7_v_13_palm_human	RummaGEO Gene Perturbation Signatures	1.0	null
BE-48-IT75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.300369
spinal trigeminal nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.22292
GSE239541_5_v_7_bmal1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BF-02-AC35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258635
GSE207611,GSE207612_3_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE210655_1_v_2_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC5637904-PATH-243-193-s016.xlsx-human_down_in_fat_SOX11-Unnamed_7_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
Testis	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.13529
rosiglitazone_mus musculus_gpl8321_gds4021	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
TP53-23651856-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE172016_2_v_0_paclitaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
HA-E2F1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM 52PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.44241
DB-41-IH69_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214289
inferolateral temporal cortex (area TEv, area 20)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07577
CTCF_fibroblast of the aortic adventitia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUZ12_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_epithelial cell of proximal tubule_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE212299_3_v_0_abi3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KDM5B	ENCODE Transcription Factor Targets	1.0	null
SUPM2	CCLE Cell Line Gene Expression Profiles	-1.0	-2.48629
H3K4me1_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AGMAT	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14006
estradiol_mus musculus_gpl4134_gse23241	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
HS 936.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.44289
GSE186287_2_v_3_ufm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
aerobic electron transport chain	GO Biological Process Annotations 2025	1.0	null
Cockayne syndrome B	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.069
AB-71-CI37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.314806
NDUFA10	Pathway Commons Protein-Protein Interactions	1.0	null
H3K27ac_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A19T-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
OD-13-IE31_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.247776
H3K4me3_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
REST_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mitochondrial electron transport, NADH to ubiquinone	GO Biological Process Annotations 2025	1.0	null
MRPS5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30636
GSE184210_0_v_3_glucagon_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-4766-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
G-402	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.947617
PMC11067031-pnas.2317690121.sd03.xlsx-gene_list_-_2022-04-13T081711_1-Differentially_expressed_genes_between_PML_RARA_GFP_vs_Empty_vector_GFP_mouse_hematopoietic_cells_at_day_7_by_single_cell_RNA-seq_RARA	Rummagene Transcription Factor Associations 2026	1.0	null
Taenia tecta, ventral part, layer 3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32012
Electron transport chain OXPHOS system in mitochondria	WikiPathways Pathways 2024	1.0	null
PMC8709578-elife-69843-supp2.xlsx-MIX_E2_1h-Nearest_Ensembl_MIXL1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC8208823-mmc2.xlsx-CDX2-KO_mesenchymal_DEG-feature_CDX2	Rummagene Transcription Factor Associations 2026	1.0	null
GTF2F1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
umbilical cord	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE158834_7_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-A6J1-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SIN3A_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAR-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.892508
G112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09549
YY1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
rectum	HPA Tissue Gene Expression Profiles	-1.0	-0.938728
all	GWASdb SNP-Phenotype Associations	1.0	0.028525
9831_WDR5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.556445
el-4 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.416576
GSE127261_1_v_2_ezh2_human	RummaGEO Gene Perturbation Signatures	1.0	null
BE-79-QU25_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.279527
Brain - Hypothalamus	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.649526
GFI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9306
HOXC9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3431
DC-70-EK34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.593974
LE-94-HL75_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.414519
GSE234289_3_v_2_rfx6_human	RummaGEO Gene Perturbation Signatures	1.0	null
X-linked ichthyosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.08
AC-31-AY35_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217932
ventrolateral prefrontal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.14125
CD-96-HO43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.336723
H3K4me3_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
6867_PSMD13_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.501375
GSE255432_4_v_0_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
outer plexiform zone in extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09493
PMC6605752-JEM_20181726_TableS1.xlsx-MYC_translational_targets-Unnamed_1_MYC	Rummagene Transcription Factor Associations 2026	1.0	null
Cardiovascular system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.526
CTCF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE207582_4_v_3_testosterone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Diencephalon	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.872
central glial substance	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.68224
CTCF_GM12874_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF684	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	60.239
CDK4_knockdown_225_GSE8866	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.664
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.998672
PMC6352376__F4	PFOCR Pathway Figure Associations 2023	1.0	null
H3K4me3_astrocyte of the spinal cord_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dna	GeneRIF Biological Term Annotations	1.0	null
pterigoid muscle trigeminal motor cell group	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.05958
hsa-miR-1238	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
GSE193993_5_v_7_sstr2_human	RummaGEO Gene Perturbation Signatures	1.0	null
large cell carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	2.05568
PMC5358377-pnas.1615015114.sd02.xlsx-Sheet1-Genes_with_VDR_elements_only_control_VDR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
COLO-818	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.12331
Perturb_11645_KD_LNX2_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	17.983
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3122	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
oculomotor nucleus, main part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.66274
8_AAMP_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.538449
Perturb_11646_KD_LNX2_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
HE-99-KP87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.533304
chr11_78061219_G_T_b38	GTEx eQTL 2025	1.0	1.11098
intracellular organelle part	GO Cellular Component Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-XJ-A9DX-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE224556,GSE224557_6_v_1_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SUM 1315M02	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05694
Glucose metabolism disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.452
Vastus lateralis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.078
GSE226439,GSE226441_6_v_2_hnf4g_human	RummaGEO Gene Perturbation Signatures	1.0	null
GA-16-IU17_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.298329
ATF3	ENCODE Transcription Factor Targets	1.0	null
Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.	Reactome Pathways 2014	1.0	null
H3K4me1_CD4+ CD25- CD45RO+ Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE201110_0_v_1_sirt4_human	RummaGEO Gene Perturbation Signatures	1.0	null
AF-13-LM61_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200477
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-449a	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
laminin-5 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.315212
anterior (rostral) cingulate (medial prefrontal) cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.16307
cisplatin_homo sapiens_gpl570_gds3910	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
hsa-miR-4298	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
SK-GT-4	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.7609
PMC4030113__F3	PFOCR Pathway Figure Associations 2024	1.0	null
RC-K8	COSMIC Cell Line Gene Mutation Profiles	1.0	null
4150_INTS5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.725686
DMS-53	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.78
tonsil_8b1	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.2714
GSE178714_5_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_A549_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
OVCAR433	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.82589
PTEN_DELETION_GDS2446_59_human_HCT116 colon cancer cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Mitochondrial inner membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
NANOG-19829295-ESCS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
UT7	CCLE Cell Line Gene Expression Profiles	1.0	1.98164
NDUFS8	Pathway Commons Protein-Protein Interactions	1.0	null
AD-85-ME82_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.215869
Perturb_4280_KO_Smchd1_SRP134966	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	15.6985
H3K4me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Spondylometaphyseal dysplasia Megarbane-Dagher-Melike type	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.114
GSE152055_2_v_3_mpc1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE189789_0_v_1_oridonin_human	RummaGEO Drug Perturbation Signatures	1.0	null
eGFP-JUNB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_brain microvascular endothelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SK-MEL-28	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.1196
EZH2	ENCODE Transcription Factor Targets	1.0	null
BRD-K99749624_S1003_A549_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE201239_3_v_2_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE217552_3_v_2_fisetin_human	RummaGEO Drug Perturbation Signatures	1.0	null
amygdalohippocampal transition zone, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.1129
Anterior cingulate area, dorsal part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05473
SUM1315MO2	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.18168
POLR2AphosphoS5_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
3-methyl-2-oxobutanoate dehydrogenase (lipoamide) complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.771
STAT3	JASPAR Predicted Transcription Factor Targets	1.0	null
Mitochondrial DNA depletion syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.162
KMH2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.77354
Artery - Aorta	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.877232
molecular layer of CbVCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.06746
Pheochromocytoma and Paraganglioma_PCPG_TCGA-SR-A6MU-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCIH1092	CCLE Cell Line Gene Expression Profiles	1.0	1.37728
HDAC2_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LNZ308	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37757
GSE171311_0_v_1_ellagic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
QA-50-YO37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.205566
Perturb_11626_KD_EMR4_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.56878
ASH2L-23239880-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
DD-42-PC65_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.05676
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DD-36-YH76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.714898
CHD1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-3126-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
FOSL2	ENCODE Transcription Factor Targets	1.0	null
sublayer 6a of InsCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33589
IZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.961014
striatum_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.38191
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EP-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
urinary system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K4me2_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Primary somatosensory area, lower limb, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.02044
PMC2148057__F5	PFOCR Pathway Figure Associations 2023	1.0	null
ZKSCAN1	ENCODE Transcription Factor Targets	1.0	null
HCE-4	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
Lung squamous cell carcinoma_LUSC_TCGA-37-4130-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE225869_3_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TAF1_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5699_NKX6-1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.575481
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.321
ChIP_JARID2_20075857	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.555274
H3K4me3_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RAD21_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM 1315M02	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.14463
Brain Lower Grade Glioma_LGG_TCGA-R8-A73M-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
7569_RRS1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.691892
POLR2A_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mitochondrial membrane part	GO Cellular Component Annotations 2015	1.0	null
CTCF_GM06990_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-579	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
Gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
ZC3H11A	ENCODE Transcription Factor Targets	1.0	null
Muscular Diseases	CTD Gene-Disease Associations	1.0	1.02447
Viral cardiomyopathy_Myocardial tissue_GSE4172	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.27068
HCC1419	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.23341
GSE158834_7_v_13_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
SPI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.57562
BB-43-YQ76_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.503352
striatum_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.51632
BCL11A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1197
AKT1_Activation - 2 week induction_GDS2308_717_mouse_Heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
hsa-miR-4276	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
GSE216043_7_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
estradiol_homo sapiens_gpl96_gds2324	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
7577_RSL24D1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.59873
THAP1	ENCODE Transcription Factor Targets	1.0	null
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Infertility, Male	CTD Gene-Disease Associations	1.0	1.35127
EF-74-KW12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.12047
Drug-Related Side Effects and Adverse Reactions	CTD Gene-Disease Associations	1.0	1.35763
H3K9ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE158834_7_v_5_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2AphosphoS5_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IB-14-YP50_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.562109
imatinib_homo sapiens_gpl96_gds3042	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
PMC11221067-JCMM-28-e18520-s002.xlsx-Supplementary_Table_2-HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
abnormality of immune serum protein physiology	GWASdb SNP-Phenotype Associations	1.0	0.591742
TAL1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC11754605-41467_2025_56327_MOESM3_ESM.xlsx-R157K_vs_MSX1-Gene_id_MSX1	Rummagene Transcription Factor Associations 2026	1.0	null
STAT5A	ENCODE Transcription Factor Targets	1.0	null
Peripheral blood	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.773
GE-01-QX17_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.36063
BC-87-PJ84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.230764
GSE164521_0_v_1_nitric oxide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EP300	ENCODE Transcription Factor Targets	1.0	null
FA-63-WI26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.20147
H3K4me3_fibroblast of upper leg skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-T1-A6J8-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
C17orf107	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.22474
H3K4me3_LNCaP clone FGC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_cardiac muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
5673_NIP7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.583404
FB-60-JQ38_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.23449
mitochondrial inner membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Cancer of Colon_Intestine - Large Intestine - Colon (MMHCC)_GSE4107	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.80745
Cytoplasmic vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GSE137144_3_v_0_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Barth syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.094
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
GSE211128_9_v_0_angptl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2AphosphoS5_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A6C6-01A-21R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
female reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
papillary	GeneRIF Biological Term Annotations	1.0	null
bmi1_17452456_medulloblastoma_lof_human_gpl570_gds2724	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.10183
ethinyl estradiol_mus musculus_gpl1261_gse44387	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Carbohydrate metabolic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.464
Lipid storage disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.033
dorsal thalamus_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.925937
FOS_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Respiratory electron transport	Reactome Pathways 2024	1.0	null
EZH2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09549
JHU-022	COSMIC Cell Line Gene Mutation Profiles	1.0	null
RKO	GDSC Cell Line Gene Expression Profiles	-1.0	-1.41813
DF-93-BT88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.869985
NE-20-WM78_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.300989
8660_TAF1D_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.54122
7481_RPL9_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.523685
DMS 53	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5376
GB-06-BA49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.259151
HCFC1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EM-01A-21R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE193999,GSE194000_3_v_2_atf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DS-A7WI-01A-12R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_Caco-2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KM12	COSMIC Cell Line Gene Mutation Profiles	1.0	null
POLR2AphosphoS5_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE224742_0_v_1_slc1a5_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC8850648-Table11.xlsx-KS-DEGs_Vs_Liu_et_al_2019-Are_listed_the_239_DEGs_in_common_between_the_current_study_and_the_published_RNAseq_data_of_NRF1_overexpression_in_human_cells_Liu_et_al_2019_NRF1	Rummagene Transcription Factor Associations 2026	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-QM-A5NM-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
neurological	GAD High Level Gene-Disease Associations	1.0	0.293278
BE-59-WG31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237025
2217_DHX8_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.534399
PMC6605752-JEM_20181726_TableS1.xlsx-MYC_translational_targets-Table_S1_Lists_of_translational_targets_of_MYC_in_MYC_ON_vs_MYC_OFF_P493_cells_and_their_5_UTR_sequences_MYC	Rummagene Transcription Factor Associations 2026	1.0	null
MAFK_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.16609
GSE120612_7_v_0_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7482_RPLP0_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.33818
MZ in dysgranular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.05437
hsa-miR-107	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
7466_RPL36_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.503993
TMEM177	Pathway Commons Protein-Protein Interactions	1.0	null
chr11_78067306_G_A_b38	GTEx eQTL 2025	1.0	1.6686
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-05-MR83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.252883
proton-transporting ATP synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.679
CTCF_fibroblast of lung_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Adrenal Gland	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.75143
GC-09-EG26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.392953
SIN3A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COX5A	Pathway Commons Protein-Protein Interactions	1.0	null
POU2F2	ENCODE Transcription Factor Targets	1.0	null
kidney	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Optic atrophy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.15
hsa-miR-4496	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
Kidney Chromophobe_KICH_TCGA-KL-8339-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Stable Angina	DisGeNET Gene-Disease Associations	1.0	null
Midbrain	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.595
2313_DNM2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.571147
epithelioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.598469
POU2F2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEAD4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.84794
PAX5	ENCODE Transcription Factor Targets	1.0	null
THOC7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.68405
MYBL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_8811_KD_CGAS_SRP340417	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE255432_7_v_2_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MTA3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.92317
GABPA_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perihypoglossal nuclei	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05473
H3K4me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.25376
GSE225869_3_v_0_cd44_human	RummaGEO Gene Perturbation Signatures	-1.0	null
mef2a	GeneRIF Biological Term Annotations	1.0	null
PMC11925450-elife-96850-supp2.xlsx-DNMT1_KO_vs_DNMT1_L1TD1_dKO_res-geneName_DNMT1	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ZC-47-HL31_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211648
H3K9me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM12873_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
E2F6_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE119978,GSE180930_2_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
extracellular region part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.050401
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GABPA_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pharmacogenomic	GAD High Level Gene-Disease Associations	1.0	0.293278
H3K4me1_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
striatum_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09526
YY1_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
4357_ICE1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.09116
2833_FAM111A_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.576097
IM-95	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.56296
H3K4me1_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RFX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pulmonary artery endothelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.197002
Lung adenocarcinoma_LUAD_TCGA-MN-A4N1-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE247862,GSE247863_0_v_1_eomes_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZF-10-JD55_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.242635
CUX1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-UB-A7ME-01A-11R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AB-96-JV50_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.240805
SPI1_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mitochondrial membrane	GO Cellular Component Annotations 2015	1.0	null
FOXM1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ebolavirus(ZEBOV)_6day_PBMCs_rhAPCtreated_21987740_GSE24943	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	0.006057
BE-82-TS38_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.469332
Nutrition disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.245
496100378_TCx_probable Alzheimer's disease_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.22829
SUM 52PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.21891
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.18344
FOXA1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BD-68-PM33_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.341936
REST_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE196671_6_v_1_obox4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
JD-01-RA07_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.441896
cellular respiration	GO Biological Process Annotations 2023	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.839073
PMC7284929__F7	PFOCR Pathway Figure Associations 2023	1.0	null
BD-38-QC39_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.332405
TAF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NU-DUL-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.43751
EB-92-TL51_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214245
hsa-miR-182	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
GSE151494_1_v_4_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
HCFC1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE165647_5_v_1_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
foxa2_20483781_p15_lung_lof_mouse_gpl1261_gse19204	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.170731
17571080-SuppTable2b	GeneSigDB Published Gene Signatures	1.0	null
HCA-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.05966
REST_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.998672
POLR2AphosphoS5_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CB-12-HC20_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.426077
6625_PPIE_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.896593
5564_NDUFC2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-2.11161
H3K9ac_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
t-lymphocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.135768
EKVX	CCLE Cell Line Gene CNV Profiles	1.0	1.63388
PMC10117100-msphere.00056-23-s0008.xlsx-2B-Supplementary_Table_S2B_mRNAseq_analysis_genes_significantely_downregulated_upon_E2F4-5_knockdown_in_38HK_E2F4	Rummagene Transcription Factor Associations 2026	1.0	null
5738_NOL9_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.693853
8670_TAF8_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.581241
NEUROG2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.2235
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFE2L2_Mutation_GDS4498_597_mouse_Skin	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
6874_PSMD6_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.560463
H3K9ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE95826_4_v_1_tcra_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
E2F4_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
icSARS-Cov_Day7_None_GSE50000	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.71472
YY1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral subdivision of area 9	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.08346
GSE119564_1_v_3_zfp217_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4132-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE172295_0_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
YB-79-DM48_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203213
nadh dehydrogenase (quinone) activity	GO Molecular Function Annotations 2015	1.0	null
bronchogenic carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.923339
NKX2-4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8565
GSE255432_7_v_0_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
RNF138	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16874
TBP_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H727	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
VF-06-RV33_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.550799
mitochondrial chromosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.41221
EGR1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYOG	ENCODE Transcription Factor Targets	1.0	null
H3K27ac_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
precommissural nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.41787
BC-25-VR48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.830929
H3K4me3_bronchial epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MAZ_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
excretory gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
r9 part of paragigantocellular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.38314
H3K4me2_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
CEBPB_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ID-26-HX79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258349
ZNF616	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.3066
hsa-miR-103a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
Endocrine pancreas	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.3
GSE239541_11_v_7_bmal1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RERFLCSQ1_LUNG	CCLE Cell Line Proteomics	1.0	2.14359
pretectal region	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.63391
IB-33-TE51_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.220991
integral component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
JD-81-YX02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.01868
CE-37-XI06_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.476867
striatum_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.998765
TA-34-CK62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.989869
BRCA1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1419_CDIPT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.505575
JUND	ENCODE Transcription Factor Targets	1.0	null
aerobic respiration	GO Biological Process Annotations 2023	1.0	null
Declive (VI), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.18302
COLO 853	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.51081
8658_TAF1C_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.537252
protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.042263
sirolimus_homo sapiens_gpl96_gds2494	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
POLR2A_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELOF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02177
H3K4me3_Jurkat_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SARS-dORF6_24Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.05631
H3K4me3_cardiac mesoderm_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Nerve - Tibial	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.814557
STAT5A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intestinal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.219485
AA-22-UI44_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.866448
H3K4ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
4099_ILF2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.533972
GSE133213_6_v_13_znrf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GD-63-XB79_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.394079
KU812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09309
Thyroid Diseases	CTD Gene-Disease Associations	1.0	1.21759
POLR2A_K562_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-1224-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
GE-47-OO30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.911902
H3K4me3_fibroblast of upper leg skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-QH-A65S-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-E5-A4U1-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
COX11	Pathway Commons Protein-Protein Interactions	1.0	null
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
t56-vastus-lateralis_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	1.48493
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.05329
macromolecular complex	GO Cellular Component Annotations 2015	1.0	null
GATA3_SH-SY5Y_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-P3-A5Q6-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.950268
GE-63-WI86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.306558
Liver hepatocellular carcinoma_LIHC_TCGA-FV-A495-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
oxidoreductase complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.009517
ECC12	GDSC Cell Line Gene Expression Profiles	1.0	1.90195
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09039
AB-18-YN11_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.34907
FOXP3-21729870-TREG-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Uvula (IX), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.33118
SIX5_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-RY-A83Z-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SKG-IIIA	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
SMARCB1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A1MF-01A-11R-A13Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE217552_3_v_0_fisetin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MZ in midcingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.32117
hsa-miR-4502	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
H3K4me1_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SIN3A_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-A34299591_Budesonide_A549_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.136
GSE186287_2_v_0_ufm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE110580_1_v_0_gemcitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE239844_8_v_9_crizotinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-515-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
GSE190534,GSE190536_0_v_3_cyclophosphamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
XD-03-FM54_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.507165
OE-33 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.105
POLR2A_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
Oxidative phosphorylation(Mus musculus)	WikiPathways Pathways 2014	1.0	null
GSE207301,GSE207303_0_v_3_tp53bp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
DD-65-SA37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.747457
Intrinsic component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E7-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-1262	TargetScan Predicted Conserved microRNA Targets	1.0	0.632343
layer 6 of CCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.10898
superior olivary complex, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.848478
H3K27ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TEAD4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1708
Combined oxidative phosphorylation deficiency 31	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.066
7469_RPL38_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.552261
KOPN-8	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.76773
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
POLR2A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_GM18505_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FA-36-VA24_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.205904
ctnnb1_19652203_myeloma_lof_human_gpl570_gds3578	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.539023
7186_RBMX2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.0127
Perturb_706_KD_SETDB1_SRP116955	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GABPA_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K53461563_-666_MCF7_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE218060_1_v_3_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
MZ2-MEL	GDSC Cell Line Gene Expression Profiles	-1.0	-1.60042
H3K23me2_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
PMC6643872__F2	PFOCR Pathway Figure Associations 2023	1.0	null
JHUEM3	CCLE Cell Line Gene CNV Profiles	1.0	3.21752
Neurodegenerative disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.536
epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.237216
Prostate adenocarcinoma_PRAD_TCGA-FC-A6HD-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cardiac mesoderm_hg19_8	ENCODE Histone Modification Site Profiles	1.0	null
Inner mitochondrial membrane protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.658
1484_CENPK_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.587175
H3K4me3_skeletal muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
TP63-22573176-HFKS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Esrrg	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	20.327
fluoxetine_mus musculus_gpl1261_gse35763	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
nadh dehydrogenase complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
BRD-K19352500_PROCHLORPERAZINE EDISYLATE_MCF7_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
TEAD4_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
mantle zone of r4Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.41776
H3K4me3_WERI-Rb-1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BCL3_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Fibre tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.595
ERG-20887958-HPC-7-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE227592_8_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
niclosamide-1998	CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
MYC_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Epithalamus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.872
Vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
lingual gyrus, right, striate	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.10986
Respirasome	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Liver	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.60946
H3K4me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE119978,GSE180930_3_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
HC-74-HM63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.290981
GE-77-FY84_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.225784
PNKD	Pathway Commons Protein-Protein Interactions	1.0	null
Respiratory chain complex III	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.207
MCF7_Alendronate sodium trihydrate_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0122056
Inflammation	CTD Gene-Disease Associations	1.0	1.64797
NIHOVCAR3	CCLE Cell Line Gene Expression Profiles	1.0	2.38188
H3K4me3_choroid plexus epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PAX5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PAX5_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10898050-12967_2024_4947_MOESM2_ESM.xlsx-Table_S7-Table_S7_Differentially_expressed_genes_between_the_TCF7_CD8_memory_T_cells_and_the_other_memory_CD8_T_cells_TCF7	Rummagene Transcription Factor Associations 2026	1.0	null
KDM4A	ENCODE Transcription Factor Targets	1.0	null
SF-21 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.645
CTCF_mammary epithelial cell_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
m1B part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.19082
TEAD4	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CBX8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.60961
medial ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.9258
hsa-miR-3672	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
POLR2AphosphoS5_Panc1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BD-38-QC39_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212999
ZNF341	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5638
RUNX3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-MH-A854-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
bt-20 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.656242
CEBPB_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3447-01A-01R-1766-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cisplatin_homo sapiens_gpl570_gse15372	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
hsa-miR-34a	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
Vacuole	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GSE158632_2_v_0_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BC-61-ZY95_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.244058
BB-43-YQ76_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.561836
PMC3226433-1756-8935-4-20-S1.XLS-Table_S4_Myc_KD_gene_exp_change-Genes_up-regulated_in_Myc_KD_hESC_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H2AK5ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
temporal pole, right, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.12638
JHH7_LIVER	CCLE Cell Line Proteomics	1.0	5.93936
8214_SNIP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.5274
REST_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAMSAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04276
cortex of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.1308
AD-00-WA10_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.260939
AC-35-CK01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.632551
6843_PSMA3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.699003
estrogen-receptor negative breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.840934
ELF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferior temporal gyrus, left, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.02181
layer II of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.10413
anterior (rostral) cingulate (medial prefrontal) cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.44098
DETROIT 562	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.31435
decitabine_homo sapiens_gpl570_gse30985	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
OCIAD2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE242167_1_v_2_cd40_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC7521272__F4	PFOCR Pathway Figure Associations 2023	1.0	null
PTEN_DELETION_GDS2446_710_human_HCT116 colon cancer cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Dendritic cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.773
intermediate stratum of AOB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.88469
POLR2A_bone marrow_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Taenia tecta	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.07998
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.40494
hmc1	HPA Cell Line Gene Expression Profiles	-1.0	-0.843508
BE-03-XC62_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231994
molecular_function	GO Molecular Function Annotations 2015	1.0	null
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.01
Mitochondrial myopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.253
Left atrium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.427
H3K4me2_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CUX1	ENCODE Transcription Factor Targets	1.0	null
YD-49-HM53_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.16565
MALME 3M	BioGPS Cell Line Gene Expression Profiles	-1.0	-0.833498
deferasirox_homo sapiens_gpl570_gds3558	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Neoplasms	CTD Gene-Disease Associations	1.0	1.04276
pioglitazone_rattus norvegicus_gpl341_gse21329	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-MI-A75I-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hematopoietic system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
NKX2-5-21415370-HL-1-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
TIM23 mitochondrial import inner membrane translocase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.106
ZBTB33_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K4me3_fibroblast of foreskin _hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cytoplasmic part	LOCATE Predicted Protein Localization Annotations	1.0	null
CCNT2	ENCODE Transcription Factor Targets	1.0	null
A549_Thiotepa_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0130991
AC-58-RM63_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.63451
H3K79me2_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-64-1677-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PECAPJ41CLONED2	CCLE Cell Line Gene CNV Profiles	1.0	1.3737
Gamma-hydroxybutyric acidaemia_CNS - Brain - Hippocampus (MMHCC)_GSE2866	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.5724
TEAD4_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
subethmoid nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.1764
ASH2L	ChEA Transcription Factor Targets	1.0	null
EP300_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM44PE	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.39113
GATA4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6172
GSE158182_5_v_0_pnpla3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GABPA_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
REST_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Fumarate reductase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.54
6851_PSMB3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.688952
KYSE-450	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29649
Perturb_11638_KD_IL17RE_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
PMC8497824-Table_4.xlsx-Stage_4_EOMES_vs_Ctrl-Unnamed_1_EOMES	Rummagene Transcription Factor Associations 2026	1.0	null
6032_PAF1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.1334
Colon Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
hsa-miR-1827	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
mitochondrial respiratory chain complex I	GO Cellular Component Annotations 2023	1.0	null
polysensory temporal cortex (area 22p)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.935034
GSE153757,GSE153758_1_v_3_ftsj1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE210655_3_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
cerebellar cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.0782
ventrolateral prefrontal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.69683
H3K4me3_foreskin fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.469211
Prostate adenocarcinoma_PRAD_TCGA-HC-A6HX-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DA-86-GO43_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.486987
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18924
Erythroid cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.161
Mafb	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.6316
PHF8_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K21672174_Ro 28-1675 ?_A549_6.0_h_160.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
H3K27ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTBP2	ENCODE Transcription Factor Targets	1.0	null
IA-38-XE73_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.246113
ERAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11645
Mitochondrial chromosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.861
4220_ITFG1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.556969
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0044
BD-39-KG21_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.246226
GSE111385_2_v_1_tgfbr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_foreskin fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_11634_KD_IFNA17_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
RUNX1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
7834_SF3A3_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.06272
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.262
superficial stratum of r2Lim	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.20832
Vascular disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.474
H3K27ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Folium-tuber vermis (VII)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.44075
TAF1_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
connecting stalk	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K4me1_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cytoplasmic chromosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.411039
GATA3_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
fastigial nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.19509
YMB-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.593
OMA1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE183041_1_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_11676_KD_SKP1A_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	14.8923
ZBTB33_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
10703_ZNRD1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.0251
Perturb_17480_KO_IGF2BP1_SRP277076	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
7482_RPLP0_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.78929
Mitochondrial respirasome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.102
DB-54-GQ68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.88379
NDUFS7	Pathway Commons Protein-Protein Interactions	1.0	null
PMC5263239-mmc2.xls-SEM_-_MLL-AF4-All_targets_genes_names_2597_unique_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
Bronchial epithelium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
outer CP in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.31171
RD-96-AM02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.21007
PMC8020666-pnas.2015855118.sd11.xlsx-LPS_attenuatedResponse-Macaque_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Adult_Liver	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.78884
olfactory bulb, principal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.02948
CMT-167 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.84
YY1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193258,GSE193259_5_v_1_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE226249_5_v_7_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
TBP_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE200673,GSE200691_1_v_0_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
superficial stratum of r6Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01103
endometrium_8a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.11906
mitochondrial respiratory chain complex assembly	GO Biological Process Annotations 2025	1.0	null
DCP1A-22483619-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE63048_11_v_6_morc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
outer CP in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.952057
primary visual cortex (striate cortex, area V1/17)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.19843
FOS	ENCODE Transcription Factor Targets	1.0	null
Helper T-lymphocyte	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.178
GSE252857_2_v_3_klf15_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.922667
4682_LRSAM1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.655151
POLR2A_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPB	ENCODE Transcription Factor Targets	1.0	null
rectum_8b	HPA Tissue Sample Gene Expression Profiles	-1.0	-0.996857
NCIH1573	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32742
H3K4me3_BJ_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
paclitaxel_homo sapiens_gpl570_gse11552	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
intracellular organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
EP300_GM12878_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2567_EIF4E_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.971634
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A6MD-01A-41R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mantle zone of AOB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.08587
hsa-miR-4685-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
SK-N-AS	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.08696
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.046
RELB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9383
Adrenocortical carcinoma_ACC_TCGA-OR-A5JE-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Primary lysosome	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
H2AFZ_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GA-88-CF36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.453519
GA-16-IU17_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.305673
USF2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-1231	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
HEC-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Perturb_11658_KD_PEO1_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.00596
Fatty Liver	CTD Gene-Disease Associations	1.0	1.67398
OKAJIMA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.26533
Secretory granule membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
icSARS CoV_60Hour_None_GSE37827	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.40857
ZNF787	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03048
Pyramus (VIII), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28266
DOHH-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.15633
6851_PSMB3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.602612
8426_SRRT_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.915899
CTCF_retinal pigment epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bone marrow	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.107
YD-71-BE10_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.311044
internal female genital organ	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
KYSE510_OESOPHAGUS	CCLE Cell Line Proteomics	1.0	5.67742
NR1I2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.0091
DD-55-SD64_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.215962
RAD21_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-84-QG99_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.0392
19088021-supptable2	GeneSigDB Published Gene Signatures	1.0	null
BC-56-CP81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.371676
Hypertrophy	CTD Gene-Disease Associations	1.0	1.52591
BC-75-CK91_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.32835
SIX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3347
HSF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.9756
HuP-T4	GDSC Cell Line Gene Expression Profiles	1.0	2.30643
Sarcoma_SARC_TCGA-DX-A8BZ-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BC-20-WA90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.468492
Liver hepatocellular carcinoma_LIHC_TCGA-BC-A5W4-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YES	Kinase Library Tyrosine Kinome Atlas	1.0	96.72
hsa-miR-4786-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
IM-95M	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.64306
chr11_78090536_C_T_b38	GTEx eQTL 2025	1.0	1.35107
Paraflocculus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.32001
BC-94-GN01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.432324
Icotinib	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.33
hsa-miR-1302	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
Lung adenocarcinoma_LUAD_TCGA-64-1681-01A-11R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
retinal pigment epithelium cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.388912
PMC7346435-12864_2020_6860_MOESM6_ESM.xlsx-H1_ZF_Oocyte_Specific-GeneH_CREBZF	Rummagene Transcription Factor Associations 2026	1.0	null
SIN3A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WA-06-QR58_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.235573
FA-36-VA24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.883274
H3K4me3_fibroblast of pulmonary artery_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of gingiva_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_HeLa-S3_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
oxidative phosphorylation	KEGG Pathways	1.0	null
Endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
hybridoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.512171
FF-86-NH56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.279645
2120_DDX41_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.853933
SNX3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03811
3632_HARS_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.618467
GATA3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100397_PCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.33996
H3K4me1_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
colonic cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.149547
SIN3A_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Organelle inner membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.105
The citric acid (TCA) cycle and respiratory electron transport	Reactome Pathways 2014	1.0	null
GSE172295_1_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DE-99-OT37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.315305
MKX	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03585
MAX_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE148252_0_v_4_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
3871_HNRNPL_P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.631142
GSE135350_3_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.02449
PMC5390115-mmc3.xlsx-DE_Lists_Exp_2-H1-EC2_3-fold_TCF15	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_GM13976_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VD-88-MW70_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.924761
ATF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WC-16-IR43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.241179
hippocampus (hippocampal formation)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.547
TAF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H4K20me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
JUND_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
imatinib_homo sapiens_gpl96_gds3043	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
kb-3-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.887557
primary visual cortex (striate cortex, area V1/17)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.09656
dorsolateral prefrontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.22617
CD-21-MI27_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.260407
YA-85-VH07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238995
GTF2B	ENCODE Transcription Factor Targets	1.0	null
Esophageal adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.707
GSE98964_1_v_4_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
tcf3_21972416_linnegflt3poscd127posly6dneg_bone_marrow_lof_mouse_gpl1261_gse27402	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.42363
19505326-SuppTable3	GeneSigDB Published Gene Signatures	1.0	null
Urinary Bladder Neoplasms	CTD Gene-Disease Associations	1.0	1.02336
mitochondrion	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K4me3_A549_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_BE2C_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE149760_3_v_5_elof1_human	RummaGEO Gene Perturbation Signatures	1.0	null
AC-71-YF45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.576075
DD-96-DE39_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.286204
E2F6_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KNS-62	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.91325
NE-37-JX51_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.285594
CB-99-OG76_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.265801
Oxidative phosphorylation	KEGG Pathways 2026	1.0	null
GSE195503_3_v_0_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SFXN4	Pathway Commons Protein-Protein Interactions	1.0	null
GSE138938_1_v_4_foxp2_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_epithelial cell of esophagus_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16175
posteroventral (inferior) parietal cortex_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.365
3220_FUNDC2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.623188
Perturb_707_KD_SETDB1_SRP116955	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
pyramidal layer of taenia tecta	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.07998
GSE148200_1_v_5_gemcitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
organelle membrane	GO Cellular Component Annotations 2015	1.0	null
GSE233679_5_v_3_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
A204	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.32458
Dorsal peduncular area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32012
COLO818	CCLE Cell Line Gene Expression Profiles	-1.0	-2.69456
POLR2A_GM19099_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4457	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
IRF4	ENCODE Transcription Factor Targets	1.0	null
hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.054062
ZBTB7A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SCC-25	GDSC Cell Line Gene Expression Profiles	-1.0	-1.80187
HDAC2	ENCODE Transcription Factor Targets	1.0	null
POLR2A_GM19193_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PDE10A_KO_GDS4542_291_mouse_striatum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE199092_1_v_0_ddx5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
AB-18-YN11_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.666404
6534_POLR1B_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.568415
BNC2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.22532
EP300_T47D_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IRF1	ENCODE Transcription Factor Targets	1.0	null
YY1_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KB-49-NF63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.213065
7478_RPL7L1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.710833
BHLHE40_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EGR1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATF1	ENCODE Transcription Factor Targets	1.0	null
GSK3A_knockdown_205_GDS4305	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.48793
MF-04-HB41_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.592442
9969_ZBTB11_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.07655
H2AFZ_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mastocytosis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.392257
GTF3C2	ENCODE Transcription Factor Targets	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-AAV0-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
zr-75-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.568424
cingulate cortex	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04829
Perturb_14723_KO_Pgr_ERP140354	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE155567_1_v_0_cd33_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Sarcoma_SARC_TCGA-DX-A3M2-01A-21R-A22K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2862-03A-01T-0736-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Esophageal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.709
protein complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
PMC10789969-crt-2023-577-Supplementary-Table-S2.pdf-17-TFDP2_TFDP2	Rummagene Transcription Factor Associations 2026	1.0	null
AC-33-YJ09_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.370838
EOMES	ChEA Transcription Factor Targets	1.0	null
GABPA_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DF-70-CD57_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.32792
Perturb_2755_KD_C11orf67_SRP095619	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.38942
EBF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.92505
SP1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZEB1	ENCODE Transcription Factor Targets	1.0	null
primary auditory cortex (core)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.36416
gata1_15860665_megakaryocytes_lof_mouse_gpl1261_gds1245	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.017856
BB-79-AG41_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204807
posterior (caudal) superior temporal cortex (area 22c)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.74691
TCF12_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
3343_GFI1B_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.574749
LA-42-ER00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.96375
CIAO2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.45926
9253_TRAPPC8_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.00079
TEAD2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.131
HNF4A-19761587-HUMAN INTESTINAL CELL LINE CACO-2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
fastigial nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.54707
central part of VMH	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.00174
anterior pretectal nucleus, dorsal superficial part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.41286
head	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
hsa-miR-214	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
Hemorrhage	CTD Gene-Disease Associations	1.0	1.20622
GABRG1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.20857
KB-65-GP42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.276859
HSC-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.566
GSE217071_3_v_0_ythdf2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
colorectum	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
NADH dehydrogenase (quinone) activity	GO Molecular Function Annotations 2023	1.0	null
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04299
ATF3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5356_MVD_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.673876
BRD-K69932463_AZD8055_A549_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
HE-34-ZC14_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.897947
HD-47-RR92_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.251354
Infralimbic area, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.24809
Basal ganglion	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
H3K4me3_cardiac mesoderm_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_endothelial cell of umbilical vein_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BHY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.56971
BC-20-WA90_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244394
MYOG_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE116810_2_v_4_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
estradiol_oncorhynchus mykiss_gpl2096_gse5643	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
1544_CHAF1A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.526532
REST_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.76313
PMC7003708__F1	PFOCR Pathway Figure Associations 2024	1.0	null
GSE202434,GSE202438_12_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11874984-Supplemental_Tables.docx-10-MAFG_MAFG	Rummagene Transcription Factor Associations 2026	1.0	null
Arntl	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.8766
CD-96-HO43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.31602
mammary gland cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.144261
EB-09-JJ93_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.641285
EML3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57782
GSE161055,GSE161056_1_v_0_hira_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC5637904-PATH-243-193-s015.xlsx-human_down_in_ductal_SOX11-Unnamed_6_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
H3K79me2_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CAMA1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70896
MDAMB436	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.97932
Bladder Urothelial Carcinoma_BLCA_TCGA-K4-A5RJ-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE144231_3_v_1_cxcr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Alzheimer's disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.285
Lung adenocarcinoma_LUAD_TCGA-38-4628-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE77108_0_v_7_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
BD-27-CC87_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.500726
cellular process	GO Biological Process Annotations 2015	1.0	null
SW 780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.93116
CAD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16564
SW900	GDSC Cell Line Gene Expression Profiles	1.0	1.45445
r5 part of posteroventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.02675
GTF2F1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VZ in caudal hippocampal proper	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-3.37187
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain - Anterior cingulate cortex (BA24)	GTEx Tissue Gene Expression Profiles 2023	-1.0	-2.26827
FA-16-HR75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.344882
hsa-miR-145	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
TAF1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.833451
KYSE-520	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.893496
Lung adenocarcinoma_LUAD_TCGA-86-8074-01A-11R-2241-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JARID2	ChEA Transcription Factor Targets	1.0	null
dorsolateral prefrontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.03583
H3K4me3_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
caudal ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.10836
H3K27ac_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GATA3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FF-86-NH56_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20359
AC-55-XA97_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.328125
PMC7521272__F4	PFOCR Pathway Figure Associations 2024	1.0	null
DNAJC16	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23596
BA-84-WN26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.334032
mitochondrial respiratory chain	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.681495
NCI-H1876	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.33748
Lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.035
GRHL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5723
vitamin c_homo sapiens_gpl570_gds3635	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
CEBPA-26348894-LIVER-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Lung adenocarcinoma_LUAD_TCGA-97-8177-01A-11R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ARID3A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular non-membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.074034
Hypoglossal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.34807
9454_TXNIP_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.620034
NDUFS4	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_H1 BMP4 Derived Trophoblast Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
PMC5217378__F2	PFOCR Pathway Figure Associations 2023	1.0	null
NDUFV3	Pathway Commons Protein-Protein Interactions	1.0	null
GATA1_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_bone marrow macrophage_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
female reproductive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Vascular Diseases	CTD Gene-Disease Associations	1.0	1.02971
respiratory system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.556865
EC-62-HO43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.21646
GSE133683_1_v_5_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
mitochondrial membrane	GO Cellular Component Annotations 2023	1.0	null
Azurophil granule	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
QF-71-QI30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.478065
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.874979
SOX13	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.3447
MXD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02231
GB-46-CK08_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.61764
lateral group of nuclei, right, ventral division	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.13783
MHH-ES-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.64381
FD-91-OK66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.910269
K562_2-Methoxyestradiol_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.015692
EP300_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cytochrome-c oxidase deficiency disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.796
JD-87-MR82_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.246363
UE-50-KK32_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.281882
MCF7_RG108_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0124634
secretory granule membrane	GO Cellular Component Annotations 2023	1.0	null
MAFK_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of pulmonary artery_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RDH13	Pathway Commons Protein-Protein Interactions	1.0	null
KASUMI2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE	CCLE Cell Line Proteomics	1.0	9.3628
NA-07-JX31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.369568
PRDM6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18914
cerebellar cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.831654
YY1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_mammary epithelial cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
NDUFB9	Pathway Commons Protein-Protein Interactions	1.0	null
GSE228106_3_v_4_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
1298_CCDC84_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.538942
Fibrosis	CTD Gene-Disease Associations	1.0	1.63339
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE148200_3_v_5_gemcitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE158834_11_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
JURKAT	CCLE Cell Line Gene Expression Profiles	-1.0	-1.4908
7474_RPL4_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.510063
CHD2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193258,GSE193259_5_v_15_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.04954
gracile nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.54467
ETS1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 69ST	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.842294
PMC11166884-mmc4.xlsx-Table_S3-Table_S3_proinflammatory-EC2_comparison_between_WT_and_TG_TCF15	Rummagene Transcription Factor Associations 2026	1.0	null
Hepatomegaly	CTD Gene-Disease Associations	1.0	1.05573
Mitochondrial creatine kinase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.538
ATF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BD-11-DV28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.28553
Electron Transport Chain(Mus musculus)	WikiPathways Pathways 2014	1.0	null
GSE211128_9_v_8_angptl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2803-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FE-56-PV35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.10576
GSE137914_4_v_5_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE143662_3_v_1_dcp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE255432_6_v_0_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PD-05-HV36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.324344
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.869
organelle inner membrane	GO Cellular Component Annotations 2023	1.0	null
CTCF_MCF-7_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6135_PCNA_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.702843
COX4I1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE236486_1_v_2_arnt_human	RummaGEO Gene Perturbation Signatures	1.0	null
3447_GNL3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.603231
Brain Lower Grade Glioma_LGG_TCGA-VM-A8C9-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HF-36-FK93_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.257994
TGFBR2_knockout_292_GSE46150	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.55051
Liver hepatocellular carcinoma_LIHC_TCGA-ES-A2HS-01A-11R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute lymphoblastic leukemia cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
RCOR1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PB-63-WH18_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20508
H3K4me3_GM12865_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
nucleus of the inferior collicular brachium, rostral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.38525
Lytic vacuole	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GATA1_G1E-ER4_mm9_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FE-29-XM40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.288467
LPIN1_OE_GDS2291_587_mouse_Liver	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE121824,GSE121826_0_v_3_scaf8_human	RummaGEO Gene Perturbation Signatures	-1.0	null
FC-67-SZ42_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.232247
Anterior olfactory nucleus, external part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.67251
intermediate stratum of r3Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.24809
Ventromedial hypothalamic nucleus, central part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01103
HCC1395	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.02901
GSE226249_2_v_1_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
BRD-K93788137_PF-431396_HS578T_24_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
POLR2A_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF263	ENCODE Transcription Factor Targets	1.0	null
hippocampus (hippocampal formation)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.909898
GSE224311_3_v_4_chaetocin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE166914_1_v_0_abemaciclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4135-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K23me2_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Dentate gyrus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.36731
7141_RBBP5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.556325
GATA6-25053715-YYC3-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
WA-15-KX40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.252243
AB-21-MV93_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.267876
mesoderm	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
BRD-K88378636_withaferin-a_HS578T_24_h_1.11_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
MYC_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K18523449_mestanolone_VCAP_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
immune system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.046933
Pheochromocytoma and Paraganglioma_PCPG_TCGA-S7-A7WO-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_17418_KO_Myd88_ERP115704	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-9.1747
TRPM7_overexpression_305_GSE23102	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.04615
496100609_TCx_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.29387
WB-92-TT14_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.719867
2122_DDX46_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.632515
Genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.649
Umbilical cord blood	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
POLR2AphosphoS5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Optic nerve disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.133
Kidney	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Lung squamous cell carcinoma_LUSC_TCGA-37-4129-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Thalamus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.348
LD-47-RN92_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.304356
mammary gland tumor cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.152638
cellular respiration	GO Biological Process Annotations 2025	1.0	null
H3K27ac_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RUNX3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BJAB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.863444
BRD-K00615600_AG14361_HEPG2_6.0_h_25.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Poisoning	CTD Gene-Disease Associations	1.0	1.36876
GSE77108_6_v_7_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2984-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AE-39-DG66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.314138
Lung adenocarcinoma_LUAD_TCGA-95-7043-01A-11R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE227592_5_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_K562_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
AA-02-FS13_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.207367
USF1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
978_C14ORF178_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.04445
CA-75-HA22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.36125
Primary somatosensory area, nose	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08316
MDST8	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.92123
RCOR1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GFI1B-20887958-HPC-7-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Precancerous Conditions	CTD Gene-Disease Associations	1.0	1.47736
COV362	CCLE Cell Line Gene CNV Profiles	1.0	1.66977
HOP-92	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12665
Respiratory chain complex I (beta subunit) mitochondrial	CORUM Protein Complexes	1.0	null
H3K4me3_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
937_BUD13_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.907809
GM2313	BioGPS Cell Line Gene Expression Profiles	1.0	1.48494
single-organism cellular process	GO Biological Process Annotations 2015	1.0	null
PMC9942321-12916_2023_2766_MOESM1_ESM.xlsx-S9-Supplementary_Table_9_DEGs_distributed_per_SOM_profile_in_all_IS_etiologies_based_on_Euclidean_distance_GRHL3	Rummagene Transcription Factor Associations 2026	1.0	null
GTEx Nerve 20-29 vs 40-49	GTEx Tissue-Specific Aging Signatures	-1.0	-4.38312
hsa-miR-1207-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
H3K4me3_H7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE233679_6_v_0_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.72894
AC-92-HS43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.795921
HCV JFH1_96Hour-Huh7_5_1c2_None_GSE29889	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.22184
dorsal thalamus_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03492
7445_RPL21_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.67277
SETDB1	ENCODE Transcription Factor Targets	1.0	null
intracellular part	LOCATE Curated Protein Localization Annotations	1.0	null
APP_KO_GDS4414_370_mouse_prefrontal cortex	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GB-81-GK41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.820889
organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
TAF1	ENCODE Transcription Factor Targets	1.0	null
EA-02-ZO63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.204295
PMC10154349-41418_2023_1142_MOESM6_ESM.xlsx-Sheet1-Supplementary_data_3_Genes_positively_correlated_with_HOXC13-AS_in_skin_granular_cells_correlation_coefficients_cor_0_FDR_0_05_HOXC13	Rummagene Transcription Factor Associations 2026	1.0	null
ZR7530	CCLE Cell Line Gene CNV Profiles	-1.0	-1.75043
SAP30_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
13_AARS_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.513498
GSE143643,GSE143644_2_v_0_hdac3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
COV362	CCLE Cell Line Gene Expression Profiles	1.0	1.48196
r8 part of the paragigantocellular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.39904
Perturb_13502_KD_WDR5_SRP321449	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.17743
SIN3A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.37252
GSE193177_1_v_3_st266_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
DA-66-OE69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.446688
YY1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Combined oxidative phosphorylation deficiency 52	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.042
Pancreatic adenocarcinoma_PAAD_TCGA-2L-AAQL-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
thorax	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.072466
NFI-21473784-ESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
NDUFB10	Pathway Commons Protein-Protein Interactions	1.0	null
GSE144838_4_v_3_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSK3B_knockdown_202_GDS4305	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.9946
IE-28-SY71_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203241
methylation	GeneRIF Biological Term Annotations	1.0	null
cerebellar cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.64453
mitochondrial envelope	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GATA2_SH-SY5Y_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-QK-A6IJ-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
STAT5A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02928
6748_PRIM2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.626674
inferolateral temporal cortex (area TEv, area 20)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.842784
Leukemia cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
H3K27ac_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
DD-30-SX80_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.245417
DC-17-ZB19_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296076
GSE127970_1_v_0_ebf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BICR22	CCLE Cell Line Gene CNV Profiles	-1.0	-1.67363
GSE191037_0_v_1_itraconazole_human	RummaGEO Drug Perturbation Signatures	-1.0	null
1588_CHMP6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.502523
OCIAML2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.55184
PCI-30	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.44723
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.204
organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
non-membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.071711
PHF8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREB1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NR3C1_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-5881-01A-11R-1592-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
3369_GINS1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.565628
H3K4me1_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CYP51A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02315
MYC_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hematopoietic system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
FF-01-OH44_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.438736
NCI-H441	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
Superoxide dismutase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.81
UC-00-QA88_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.217074
Posterior parietal association areas, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.06737
Abnormalities, Drug-Induced	CTD Gene-Disease Associations	1.0	1.254
Esophagus - Muscularis	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.764507
mouth	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
SARS-dORF6_36Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.65745
GSE242555_1_v_0_fn3k_human	RummaGEO Gene Perturbation Signatures	1.0	null
DA-27-BW40_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.765069
GSE146982_3_v_6_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_retinal pigment epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC11749115-loae020_suppl_Supplementary_Table_S2.xlsx-CHOP-high-gene_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
CF-50-QK79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.25542
Pyruvate dehydrogenase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.195
GSE213588_8_v_1_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FAST48h_vs_D4REFED48h_750_AR--Gene_Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
5339_MTOR_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.664694
HCFC1_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CF-42-OS28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.478913
ILF3-29590119-K562-HUMAN-BONEMARROW-LEUKEMIA	ChEA Transcription Factor Targets 2022	1.0	null
MCF7_CEP-33779_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0127789
ChIP_ASH2L_23239880	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Perturb_12846_KO_Setd1b_SRP081141	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	18.1487
H3K4me3_choroid plexus epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
molecular layer of the DG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.34221
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
NCI-H510A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.972985
Electron Transport Chain(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
LF-64-NB46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.325904
Perturb_10788_KO_Shp_SRP220815	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.0435
IA-48-KI53_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.202446
Alzheimer Disease	HuGE Navigator Gene-Phenotype Associations	1.0	null
H3K4me3_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
MDA-MB-330	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31016
Lung adenocarcinoma_LUAD_TCGA-05-5428-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZC-47-HL31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.490502
3632_HARS_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.615492
thada	GeneRIF Biological Term Annotations	1.0	null
AA-09-HG96_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.498074
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of lung_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
E2F6_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE190186,GSE190188_0_v_5_apoe_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Primary motor area, Layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.80122
GSE158632_2_v_5_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Pancreatic islet	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.3
CB-99-OG76_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.357049
AB-92-LS83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.28878
H3K4me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
VZ in subcallosal region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.82541
BRD-K65182930_NVP-AUY922_HS578T_3_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GSE233679_6_v_11_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Transmembrane transporter complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
chr11_78118381_T_A_b38	GTEx eQTL 2025	1.0	2.0789
orbital frontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.20414
hsa-miR-1273e	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
GSE217105_0_v_1_gemcitabine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
7541_RPTOR_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.767334
GSE226249_5_v_4_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
REST_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GP5D	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E8-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6605_PPAN_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.630892
S117	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55139
GATA1	ChEA Transcription Factor Targets	1.0	null
FB-66-UU47_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.526795
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17494
5476_NBAS_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.538846
GSE182680,GSE182683_10_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
AC-84-QG99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.556395
STAT1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_A549_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ENL-26711339-SEM-HUMAN-BLOOD-LEUKEMIA	ChEA Transcription Factor Targets 2022	1.0	null
TAF7	ENCODE Transcription Factor Targets	1.0	null
BRD-K35960502_NICLOSAMIDE_THP1_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Mitochondrial ribosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.622
UA-91-HL97_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.387454
Organellar small ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.332
Ppara	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.3925
CRCGN010_HEPG2_24H:H07	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.8508
GSE182680,GSE182683_10_v_4_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H441	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.893496
lysosomal membrane	GO Cellular Component Annotations 2023	1.0	null
MXI1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E18-D3_2440_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE62843,GSE64371_2_v_5_furan_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
POU2F2_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
orbital frontal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.25382
Amygdala	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
POLR2A_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acute Kidney Injury	CTD Gene-Disease Associations	1.0	1.35213
5534_NDUFA1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.555152
GSE208254_4_v_5_irf8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ventrolateral prefrontal cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.13386
POLR2A_erythroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDAMB134VI	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	2.40405
intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
primary somatosensory cortex (area S1, areas 3,1,2)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.3128
Kidney Chromophobe_KICH_TCGA-KO-8409-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Right atrium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.478
UBTF_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDA-MB-175-VII	GDSC Cell Line Gene Expression Profiles	1.0	1.61769
hsa-miR-1972	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
POLR2A_HeLa-S3_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8724844-bt-30-1-98-supple2.xlsx-Hallmark_pathways-HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
COLO 853	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.60483
thyroid gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
anterior hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.11836
KC-96-UA29_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201953
Retrosplenial area, lateral agranular part, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.5274
Neostriatum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.266
cerebellar cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03829
AtrioventricularNode	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-2.72332
Death	CTD Gene-Disease Associations	1.0	1.03084
HUP-T4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.88717
JE-55-OJ53_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.48536
Blood cancer cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
MALME3M	CCLE Cell Line Gene CNV Profiles	-1.0	-1.40056
Mesothelioma_MESO_TCGA-SH-A7BH-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
7338_RNF113A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.642631
H3K4me3_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GA-77-FY14_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217209
mast cell neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.603811
MAX_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.0057
Cochlear nuclei	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.36012
BC-54-ON71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.225192
BB-44-SX65_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.534863
5588_NEDD8_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.44505
Necrosis	CTD Gene-Disease Associations	1.0	1.58208
TRIM28_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary motor cortex (area M1, area 4)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.0067
pioglitazone_mus musculus_gpl6246_gse37534	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
LAN-6	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.22995
POLR2A_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CMC1	Pathway Commons Protein-Protein Interactions	1.0	null
FA-88-II68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.08191
POLR2A_GM15510_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GA-01-EO66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.243541
MYC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
t60-adrenal_male_1w	MoTrPAC Rat Endurance Exercise Training	1.0	2.2241
SUPT20H_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Viscus	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
6844_PSMA4_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.691274
substantia nigra, pars reticulata, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.977811
SA1-27219007-CHIP-SEQ-ERYTHROID-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Lactic acidosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.133
BHLHE40_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
stomach	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.072667
ethanol_rattus norvegicus_gpl85_gse1997	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
BRD-K94390040_-666_MCF7_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
JAK1_activemutant_61_GSE18239	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.59909
5683_NKAP_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.791454
temporal pole, left, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.39828
CTCF_fibroblast of mammary gland_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXA2	ENCODE Transcription Factor Targets	1.0	null
GSE143662_0_v_1_dcp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10661700-41525_2023_383_MOESM2_ESM.xlsx-Supp_Table8_gnomAD_AFR_GCR-SYMBOL_NR3C1	Rummagene Transcription Factor Associations 2026	1.0	null
primary motor cortex (area M1, area 4)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.48593
GSE158834_10_v_8_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
H2BK12ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
MAZ_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11636_KD_IL15_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	13.5823
periventricular stratum of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0401
GABPA_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-A63U-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE68155_1_v_0_gpr3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE81803,GSE81912_2_v_5_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF12	ENCODE Transcription Factor Targets	1.0	null
9478_UBA1_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.648926
EA-09-HM95_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.497928
H3K36me3_cardiac mesoderm_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MXI1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE154219_0_v_2_cholestyramine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Artery disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.296
PML_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1618	CCLE Cell Line Gene Expression Profiles	1.0	1.48169
internal female genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056465
AB-09-EA37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.29648
PMC9248879-supp_gr.275831.121_Supplemental_Table_S2.xlsx-TP53-dependent_proteins-GeneName_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
PMC6781638__F4	PFOCR Pathway Figure Associations 2024	1.0	null
COX15	Pathway Commons Protein-Protein Interactions	1.0	null
GC-46-AX49_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.56895
GSE175787_11_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
MCF7_Alendronate sodium trihydrate_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.015437
mitochondrial inner membrane	GO Cellular Component Annotations 2023	1.0	null
SK-MEL-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.80394
H3K4me3_HL-60_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
6163_GATD1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.500657
Respiratory chain complex I	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.851
Carvedilol	DrugBank Drug Targets	1.0	null
E2F4	ENCODE Transcription Factor Targets	1.0	null
OE-31-YC41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.23408
STAT3_OE_GDS3444_576_mouse_Cultured embryonic stem (ES) cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Taenia tecta, dorsal part, layer 4	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.77225
MKK6	Kinase Library Tyrosine Kinome Atlas	1.0	96.67
FOXJ1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14697
H3K9ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2977-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE125007,GSE125008_10_v_0_uhrf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
striatum_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.48473
Kidney Diseases	CTD Gene-Disease Associations	1.0	1.39591
ARID3A	ENCODE Transcription Factor Targets	1.0	null
striatum_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.29217
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.05665
10029_ZC3H8_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.35967
SRF	ENCODE Transcription Factor Targets	1.0	null
NDUFA6	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-548s	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
H3K4me3_HepG2_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
CA-44-WJ06_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.23989
ELF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVCA 432	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.12638
RUNX1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-34c-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
AB-21-VE32_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.338614
FE-10-KQ78_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236826
alveolar sac	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.122256
nucleus accumbens, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.87195
SRF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.9163
intrinsic component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
EP300_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IE-28-SY71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.285501
Hippocampal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.04
Autosomal genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.075
Mitochondrial matrix	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.976
5447_NADSYN1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.57017
EP300_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cisplatin_homo sapiens_gds3910	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
EC-95-BQ25_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.287863
TAF7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-A36066264_ESTRADIOL BENZOATE_VCAP_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Hypertension	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.138
CE-03-PW65_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.260116
3501_GPKOW_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.585283
cervical cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.098849
Daudi	GDSC Cell Line Gene Expression Profiles	-1.0	-1.46233
PMC9537523-41467_2022_33364_MOESM7_ESM.xlsx-scores_wilcoxon_1_MONTH_ORG-EN1_n_EN1	Rummagene Transcription Factor Associations 2026	1.0	null
ZNF24	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	58.7234
SIG-M5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.11192
7477_RPL7A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.729643
primary motor cortex (area M1, area 4)_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.962118
hsa-miR-761	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
5762_NPAT_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.609285
Heart disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.059
HCC1419	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37367
rectum_8c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.20785
Acute Myeloid Leukemia_LAML_TCGA-AB-2841-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
pancreatic cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.471927
PAX5_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SURF1	Pathway Commons Protein-Protein Interactions	1.0	null
AA-35-VH74_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.202792
BB-84-DG64_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.277962
5659_NGDN_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.540551
GSE114258_1_v_0_foxk1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EKVX	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.4147
WC-09-GD62_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244584
JC-05-CC41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.330989
GSE210655_1_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Peripheral nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.194
CBX3	ENCODE Transcription Factor Targets	1.0	null
pathways	GeneRIF Biological Term Annotations	1.0	null
Perturb_11648_KD_LOC399818_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7432-01A-11R-2132-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE193258,GSE193259_5_v_13_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
POLR2AphosphoS5_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EF-22-PB37_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.281011
GSE147664_0_v_1_arid1b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SMC3	ENCODE Transcription Factor Targets	1.0	null
proton motive force-driven ATP synthesis	GO Biological Process Annotations 2023	1.0	null
GSE186660_2_v_1_nicotine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE151612_4_v_2_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE113734_3_v_0_qprt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CC-04-WK34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.70876
PMC8175556-42003_2021_2140_MOESM6_ESM.txt--HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
NCI-H1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59489
NFATC1	ENCODE Transcription Factor Targets	1.0	null
Hand1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	25.1394
urogenital system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055415
NR2F2_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.03348
Tauopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.28
EF-22-PB37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.287769
chr11_78072265_C_A_b38	GTEx eQTL 2025	1.0	2.41274
ZA-63-AC60_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.584798
SPI1-20517297-HL60-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
soft tissue	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
capillary endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.367129
DF-75-OU25_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.13831
H3K4me3_keratinocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.43105
RV16_0Hour-B2B_None_GSE28904	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.66971
Brain Lower Grade Glioma_LGG_TCGA-DB-5274-01A-01R-1470-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
5809_NRBP1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.720885
JC-05-CC41_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217787
DorsalRootGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.88329
XD-08-ZW85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.262818
PMC4431731-pgen.1005211.s002.xlsx-ERG_TRISOMY-Unnamed_2_ERG	Rummagene Transcription Factor Associations 2026	1.0	null
CEBPD	ENCODE Transcription Factor Targets	1.0	null
GSE105173,GSE105175_1_v_0_dhx36_human	RummaGEO Gene Perturbation Signatures	-1.0	null
superficial stratum of r10BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.00752
GSE87299_1_v_0_nr1d1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.71835
Subthalamic nucleus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.09
DA-23-TZ42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.348676
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.158
Nervous System Diseases	CTD Gene-Disease Associations	1.0	1.09927
DA-20-VR86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.210103
GATA1_G1E-ER4_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_WERI-Rb-1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
7559_RRN3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.711262
CB-12-HC20_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.249944
JC-96-ID26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.387934
NCI-H250	COSMIC Cell Line Gene Mutation Profiles	1.0	null
nb4	HPA Cell Line Gene Expression Profiles	1.0	1.13806
ZNF37A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.20473
Brain Lower Grade Glioma_LGG_TCGA-HT-7603-01A-21R-2090-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE239578_0_v_6_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AB-30-CR11_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.282714
5737_NOL8_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.572486
UF-06-JB00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.668969
spinal trigeminal nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.942101
Nerve Degeneration	CTD Gene-Disease Associations	1.0	1.07269
SIX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dorsolateral prefrontal cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.837254
H3K27ac_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TEAD4_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COX16	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MAZ_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.068004
H3K4me1_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
KA-81-AG66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.770857
posteroventral (inferior) parietal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.10632
cerebellar cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.1603
imatinib_homo sapiens_gpl571_gds3518	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
CTCF_cardiac muscle cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Primary somatosensory area, mouth, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08316
MCF12A	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.952292
GSE138019_3_v_2_nudt12_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
KB-78-BE93_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.793462
BB-82-TP51_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.41606
OB inner plexiform layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.57556
mitochondrial part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
3677_HEATR1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	1.0704
PMC11237048-41598_2024_64364_MOESM1_ESM.pdf-21-ENSG00000162599_NFIA	Rummagene Transcription Factor Associations 2026	1.0	null
intracellular part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.188274
SRF_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventrolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.980604
1408_CDC5L_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.700997
TCF12_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CC-68-YZ44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238119
Hepatitis	CTD Gene-Disease Associations	1.0	1.22884
methylprednisolone_rattus norvegicus_gpl85_gds965	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Adrenalgland	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.2478
Lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.15
HCT-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.69192
Liver hepatocellular carcinoma_LIHC_TCGA-BC-A69I-01A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prelimbic area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.6944
NADH dehydrogenase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.643
Gustatory areas, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.40927
dorsal lateral geniculate nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.20385
3950_HSD17B12_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.547455
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A82B-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FD-20-OG99_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.975944
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.176
6847_PSMA7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.500527
motor nucleus of trigeminal nerve, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.06861
MDAMB175VII	CCLE Cell Line Gene Expression Profiles	1.0	1.89869
6858_PSMC2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.53691
7419_RPA2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.710057
GSE217101_0_v_1_mcph1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_GM12878_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
primary auditory cortex (core)_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.03272
Anterior cingulate area, dorsal part, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05784
Folium-tuber vermis (VII), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.34802
Adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.016
Urogenital system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Amniocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.619
GSE168401_1_v_3_harmine_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZNF143_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SARS-CoV MA15_Day7-PFU-10^4_None_GSE50000	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.72536
vascular system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE178714_1_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	1.0	null
5683_NKAP_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.06208
rectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.162786
JUND_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
697_ATRIP_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.573031
H3K4me3_fibroblast of skin of abdomen_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
NDUFAF1	Pathway Commons Protein-Protein Interactions	1.0	null
EGR1	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_foreskin fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
REST_PFSK-1_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7697260__F3	PFOCR Pathway Figure Associations 2024	1.0	null
Anterior cingulate area, ventral part, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.19082
DEOC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.958942
muscular system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
NCIH1048_LUNG	CCLE Cell Line Proteomics	1.0	2.52754
2961_FANCB_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.53199
MDA-MB-134-VI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.16974
COA3	Pathway Commons Protein-Protein Interactions	1.0	null
amygdaloid complex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.01261
Sarcoma_SARC_TCGA-QQ-A5VC-01A-31R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CA-68-TC79_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.209649
parvocellular part of r8LRt	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.20509
PHF8	ENCODE Transcription Factor Targets	1.0	null
496100330_PCx_possible Alzheimer's disease_no TBI_100+_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.09918
SNU-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.04378
superficial stratum of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12693
17660535-TableS4a	GeneSigDB Published Gene Signatures	1.0	null
679_ATP6V1A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.645145
TBL1XR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_17226_KO_lincBrn1b_SRP028547	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
H2AFZ_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFV2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE137144_4_v_0_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AA-85-LB25_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236226
YA-92-YO01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.291618
GSE129244_3_v_5_lmo2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE165647_2_v_1_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PCGF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.80008
GSE75976_3_v_4_abl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
short insular gyri, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.837363
XCT 790	DeepCoverMOA Drug Mechanisms of Action	1.0	0.31
REST_PFSK-1_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ERG-20887958-HPC-7-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.901774
H3K27ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_cardiac mesoderm_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
lung	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.482
Oxidative phosphorylation	WikiPathways Pathways 2024	1.0	null
GSE125862_2_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
including	GeneRIF Biological Term Annotations	1.0	null
placenta	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Mitochondrial crista junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.539
H3K4me3_H7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Female reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
S100A14	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18327
BRCA1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Orbital area, ventrolateral part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.15617
primary motor cortex (area M1, area 4)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.20431
A549_Costunolide_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0148182
r2 part of the trigeminal motor nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.21201
medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.47755
POLR2AphosphoS5_U-87 MG_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Granular lamina of the cochlear nuclei	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.62254
MAFK_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary motor cortex (area M1, area 4)_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.833586
CA-75-HA22_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.447884
SCC-3	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.08168
Mitochondrial nucleoid	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.86
Prostate adenocarcinoma_PRAD_TCGA-KK-A8IK-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MF-04-HB41_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.622879
superficial stratum of PcPL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.41286
GSE202434,GSE202438_10_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
8029_SLC2A8_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.511648
RCOR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC60	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.28747
ID-69-QF93_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.416906
BRD-K57169635_dacomitinib_HEPG2_24_h_0.04_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
PPARD-21283829-MYOFIBROBLAST-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
CC-17-JL38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.18606
primary motor cortex (area M1, area 4)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.2593
r3 part of anteroventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.11136
GSE164505,GSE164506_3_v_2_indisulam_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7338_RNF113A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.02252
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FAST48h_vs_D3REFED24h_1198_AR-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
membrane-enclosed lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.161693
MZ in posterodorsal (superior) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.88562
BHY	GDSC Cell Line Gene Expression Profiles	1.0	1.80781
TEAD4_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OCI-AML2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.846664
19658189-TableS3	GeneSigDB Published Gene Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3427-01A-01R-0864-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A8HY-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
posteroventral (inferior) parietal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.23618
integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.084833
FF-34-KW62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.289602
5927_OGDH_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.54239
H3K4me3_LNCaP clone FGC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ELK1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE185944_0_v_3_pth1r_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FF-01-OH44_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.313225
exocrine gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
periventricular stratum of TTe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.17031
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.982478
H3K4me1_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Secretory granule	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.89647
6845_PSMA5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.674175
5811_NRF1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.531891
anterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.72069
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.088
CRCGN014_HEPG2_24H:D07	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.16765
ZNF766	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.9228
Nucleus of Roller	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.13882
Cytotoxic T-lymphocyte	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.132
SRF_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE133070_2_v_4_prss1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
7453_RPL26_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.661208
H3K4me2_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ETS1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LXR-22292898-THP-1-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Heart - Left Ventricle	GTEx Tissue Gene Expression Profiles 2023	1.0	3.18496
SIN3A_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147240_0_v_7_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
NFIC_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE157282_0_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CRCGN009_HEPG2_24H:L03	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.76893
RELA	ENCODE Transcription Factor Targets	1.0	null
mediodorsal nucleus of thalamus_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.953679
chr11_78113371_G_GTA_b38	GTEx eQTL 2025	1.0	1.45773
Brain microvascular endothelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.765
Uvula (IX), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.18842
GSE161846,GSE161849_1_v_0_smarca4_human	RummaGEO Gene Perturbation Signatures	1.0	null
7450_RPL23_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.55184
H3K4me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Regulatory T (Treg) cell_Liver_Human	CellMarker Gene-Cell Type Associations	1.0	null
KDM5A-27292631-CHIP-SEQ-BREAST-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
r6 part of posteroventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01415
H3K4me3_fibroblast of lung_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
MCF7_Entacapone_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0162384
CREB1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FA-16-KA99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.356562
GSE134191_3_v_1_metformin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
4951_MED28_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.503017
H3K4me3_fibroblast of skin of abdomen_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Complex I biogenesis	Reactome Pathways 2024	1.0	null
GSE239578_0_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
known	GeneRIF Biological Term Annotations	1.0	null
GSE171724_4_v_6_ezh2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BC-40-TU13_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.70859
Amyotrophic lateral sclerosis	KEGG Pathways 2026	1.0	null
H3K4me3_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
fetus	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Leber hereditary optic neuropathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.292
6118_PCED1A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.982423
H3K4me3_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
estradiol_homo sapiens_gpl570_gse16683	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-Q1-A73S-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PAX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4686	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
MZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.08401
POLR2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
capillary	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.201501
CC-21-IE22_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.387987
GE-40-GQ38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.37745
hippocampus (hippocampal formation)_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.60349
Mitochondrial envelope	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.056
H3K4me3_epithelial cell of esophagus_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
XD-03-FM54_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.375813
16207381-Table1Sa	GeneSigDB Published Gene Signatures	1.0	null
PMC9601604-NIHMS1841143-supplement-SuppTable-3.xlsx-shared_upregulated-Genes_upregulated_in_the_absence_of_FOXO3_in_GSCs_and_aged_NSCs_FOXO3	Rummagene Transcription Factor Associations 2026	1.0	null
EP300_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
integral component of membrane	GO Cellular Component Annotations 2015	1.0	null
MYC_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE158834_11_v_8_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
eGFP-JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUND_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CA-68-KG29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.588803
female reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060091
KB-92-MK13_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.550195
6868_PSMD14_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.510346
r2 part of dorsal parvicellular reticular formation	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.8671
H3K4me3_SK-N-MC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE142210_2_v_8_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Cerebrovascular disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.356
submedius thalamic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09745
2113_DDX24_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.658086
caudal group of intralaminar nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.836575
GF-57-LR72_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.401084
HT-22 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.055
Parkinson disease	KEGG Pathways 2026	1.0	null
parvocellular part of the r9LRt	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.37513
BCLAF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188721_2_v_4_mesp1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A7M5-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PANC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.892508
LD-36-DG33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203893
PAM complex, Tim23 associated import motor	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.876
cardiovascular system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
HOXD12	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5956
NR2F2	ENCODE Transcription Factor Targets	1.0	null
DA-35-DU85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.977676
superficial stratum of SeDg	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.35603
GSE93309_2_v_4_prmt1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CRCGN017_MCF10A.WT.HP_24H:I10	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.58715
C2BBE1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.12751
Lymphoblast	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.734
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
THAP1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GC-46-AX49_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.407291
H2AFZ_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Taenia tecta, dorsal part, layer 3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.43456
Cognition	HuGE Navigator Gene-Phenotype Associations	1.0	null
ZBTB33_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT1::STAT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	79.6903
MZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.921042
GM133	BioGPS Cell Line Gene Expression Profiles	1.0	1.17123
POLR2AphosphoS5_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIN3A_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Immunodeficiency 44	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.082
Taenia tecta, ventral part, layer 2	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27415
RD-79-FH72_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214975
POLR2AphosphoS5_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Declive (VI)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.3074
OD-13-IE31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211597
HE-99-KP87_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201621
CB-84-FA85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.221089
Perturb_11662_KD_PPP1CB_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.43524
Perturb_2844_KD_FOXA1_SRP288463	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	8.745
valproic acid_mus musculus_gpl1261_gds3002	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
POLR2A_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-30-XU83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.485424
496100605_TCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.02829
liver_a	HPA Tissue Sample Gene Expression Profiles	1.0	0.826323
377_AP2M1_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.743696
proton motive force-driven ATP synthesis	GO Biological Process Annotations 2025	1.0	null
biological_process	GO Biological Process Annotations 2015	1.0	null
TBL1XR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NKX2-5-21415370-HL-1-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
BE-61-CB85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.382996
EA-07-RB34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212527
PMC12337709-mmc3.xlsx-Wild-type_vs_RAG1_KO_spleen-Unnamed_1_RAG1	Rummagene Transcription Factor Associations 2026	1.0	null
Peripheral_Blood_Mononuclear_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.24394
NDUFS2	Pathway Commons Protein-Protein Interactions	1.0	null
primary motor cortex (area M1, area 4)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.98543
POLR2A_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AE-80-WH32_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.322148
AF4-26711339-SEM-HUMAN-BLOOD-LEUKEMIA	ChEA Transcription Factor Targets 2022	1.0	null
Perturb_11627_KD_ERCC3_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.54468
intracellular organelle lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.1632
BF-69-DN58_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.230645
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AN-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC5577301-in-17-237-s001.xls-AR_downregulated_DEGs-Heart_GSE4470_GENE_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GB-16-SU72_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.213928
inferolateral temporal cortex (area TEv, area 20)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.25229
JC-53-YE56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.290159
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EA-A556-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE210655_1_v_6_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
lung cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.10845
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
E2F3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.8109
PD-94-WO47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.2275
adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.577327
cervical carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.131038
SNU1196	CCLE Cell Line Gene CNV Profiles	-1.0	-2.80481
SMARCC1	ENCODE Transcription Factor Targets	1.0	null
MCF7_SRT3025 HCl_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.014362
GSE193258,GSE193259_5_v_8_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-4738-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
4908_MCOLN1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.645238
9210_TPP2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	1.15088
SF126	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.24943
pancreas	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.096019
reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057345
MAX_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mantle zone of CCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04829
Coronary artery disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.029
Perturb_14533_KO_Ptf1a/Foxa2_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
HOXB9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8025
Cardiac Failure_Myocardial tissue_GSE1988	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.44969
central nucleus of inferior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.37014
skeletalmuscle_e	HPA Tissue Sample Gene Expression Profiles	1.0	1.01999
urinary tract	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
USF1_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FB-91-BU05_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.671779
CAL-39	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.37538
ES-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.39127
IF-92-OK68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.379632
lymphoid tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064145
5748_NOP2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.695681
E2F4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cell part	GO Cellular Component Annotations 2015	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-5326-01A-01R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BRD-K13390322_AT-7519_BT20_24_h_0.37_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A7SF-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
RBMX	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45713
HUP-T4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.04231
Agranular insular area, ventral part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04829
H3K4me3_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE119978,GSE180930_3_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
NCIH1435	CCLE Cell Line Gene Expression Profiles	1.0	2.24393
TET1-21490601-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
SIN3A_Panc1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_HL-60_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
BB-83-OX58_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.541321
CF-65-GU65_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.28289
NDUFA7	Pathway Commons Protein-Protein Interactions	1.0	null
5747_NOP16_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.663956
lymph node	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
BC-88-KT45_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.336032
NCIH2227	CCLE Cell Line Gene Expression Profiles	1.0	1.39015
OVTOKO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.88717
GSE146070_1_v_0_edem3_human	RummaGEO Gene Perturbation Signatures	1.0	null
INTS11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.4483
hsa-miR-494	TargetScan Predicted Conserved microRNA Targets	1.0	0.474009
dorsolateral prefrontal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.11852
AE-66-YB82_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.207672
MESP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62063
FOXM1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRD-K64058329_-666_HT29_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
496100651_FWM_probable Alzheimer's disease_TBI_83_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.15271
Infralimbic area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04829
GSE135514_8_v_9_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
UF-27-HS98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.19726
GSE193999,GSE194000_4_v_0_atf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EA-18-FP00_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.472234
Kidney renal papillary cell carcinoma_KIRP_TCGA-2Z-A9J2-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC4344782__F11	PFOCR Pathway Figure Associations 2023	1.0	null
prostate cancer	GAD Gene-Disease Associations	1.0	null
MZ in granular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.940056
FOXA1	ENCODE Transcription Factor Targets	1.0	null
Perturb_11660_KD_PLCB1_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.31546
8653_TAF12_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.590798
EC-17-MF19_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.416578
HA-38-ML65_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.279901
GABPA_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SC-17-WW78_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.394126
MAX_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
superficial stratum of VTTh	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.11305
HC-74-HM63_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.397073
posterior (caudal) superior temporal cortex (area 22c)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.3128
JUND_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05465
H3K27ac_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
A2058_SKIN	CCLE Cell Line Proteomics	1.0	3.12787
GABPA_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RD-92-QT24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.57525
mitochondrial matrix	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.378507
SKNAS	CCLE Cell Line Gene CNV Profiles	-1.0	-1.96654
GSE179974_3_v_5_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
ATF2_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
K562_SL-327_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.017864
CREB1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PML_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDAMB134VI	CCLE Cell Line Gene Expression Profiles	1.0	3.40794
BRD-K44227013_ponatinib_MCF7_24_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
9909_XRCC6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.538432
GSE138945,GSE138947_0_v_1_mboat7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
12384544-Table2	GeneSigDB Published Gene Signatures	1.0	null
thyroid gland	HPA Tissue Gene Expression Profiles	1.0	1.00261
ND-20-AS37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296571
ED-02-CL76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.900234
GF-05-GQ05_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.594343
Charcot-Marie-Tooth disease type 2A2B	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.019
Main olfactory bulb, granule layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.76885
urogenital system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PAX5_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14390_KD_MECOM_SRP276625	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.71821
Lung adenocarcinoma_LUAD_TCGA-69-8255-01A-11R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bounding membrane of organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
PMC12238561-42003_2025_8460_MOESM2_ESM.xlsx-IDs_S27_LF_C2_24h-Unnamed_5_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
Pyramus (VIII)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28606
GSE140997_4_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
electron transport chain	GO Biological Process Annotations 2015	1.0	null
JA-77-UH38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237128
8890_THOC5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.539733
GSE184479_3_v_2_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NC-52-AG88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.313039
dorsal thalamus_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.852507
cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.174635
H3K4me3_K562_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
HOXC11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.5397
Cardiovascular Diseases	CTD Gene-Disease Associations	1.0	1.17761
GSE153189_1_v_0_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC5217378__F2	PFOCR Pathway Figure Associations 2024	1.0	null
Paramedian lobule, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.2514
PMC11799530-12276_2024_1380_MOESM1_ESM.xlsx-COMMON_KD-DOWN_and_OE-UP-109_common_elements_in_kd-down_and_oe-up_AR	Rummagene Transcription Factor Associations 2026	1.0	null
NCOR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Oxidative phosphorylation(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
MCF7_Iniparib_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0141974
NFATC1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2BC7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00711
Monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.158
OE-34-NH10_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.482061
GSE193993_4_v_3_sstr2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CB-12-HC20_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.392096
GABPA_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10679653-mmc2.xlsx-ISL1_KO_Markers_L-Unnamed_0_ISL1	Rummagene Transcription Factor Associations 2026	1.0	null
IKBKG	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61723
YE-55-YX75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.588741
SARS-ddORF6_84Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.59126
CTCF_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Diabetes Mellitus, Type 2	HuGE Navigator Gene-Phenotype Associations	1.0	null
short insular gyri, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.949038
central nervous system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
r2 part of cochlear sensory column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.5593
Organelle inner membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GABPA_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE233679_6_v_10_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BB-43-YQ76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.300087
HOXC12	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0115
GATA3	JASPAR Predicted Transcription Factor Targets	1.0	null
Claustrum	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.15259
GSE157894_2_v_0_cystine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Prenatal Exposure Delayed Effects	CTD Gene-Disease Associations	1.0	1.67783
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.56535
B-lymphoblastoid cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.734
3369_GINS1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.607553
periventricular stratum of r6BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33182
PMC6526899__F3	PFOCR Pathway Figure Associations 2023	1.0	null
cerebellar cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16175
intermediate stratum of r2Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.95702
H3K27ac_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
TBXT	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.8114
GSE200388_0_v_1_gemin5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H1666	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.4796
nucleus coeruleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.30447
KB-78-BE93_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.700043
E2F4-21247883-LYMPHOBLASTOID-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
MYC_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Fe2+	HMDB Metabolites of Enzymes	1.0	null
JUND_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5493_NCBP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.51282
H3K4me1_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2793_KD_PRMT1_SRP214436	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	8.02265
GSE239578_2_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
QE-79-XO29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.697333
TE-15	COSMIC Cell Line Gene CNV Profiles	1.0	2.36889
mitochondrial membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
MAFK_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
QC-12-DW06_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.385331
SUM-52PE cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.953
H3K9ac_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC4398389__F1	PFOCR Pathway Figure Associations 2024	1.0	null
PML_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7186_RBMX2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.552098
H3K27ac_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SG in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.58688
oxidoreductase complex	GO Cellular Component Annotations 2015	1.0	null
GSE224969,GSE224971_0_v_1_chtop_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
QF-00-NO42_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.298234
H3K4me3_fibroblast of foreskin _hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE151782_2_v_0_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CEBPD_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RC-18-AD40_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.413384
ZNF667	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.3236
Myopathy with extrapyramidal signs	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.112
5356_MVD_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.533035
fusiform gyrus, left, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.21439
OVISE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31016
NB-17-SQ59_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244589
Main olfactory bulb, mitral layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.21645
4164_IPO7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.544718
endocrine gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
MB-53-WO35_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.662513
MB-53-WO35_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231978
Perturb_11663_KD_PPP1CB_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.90014
dorsal subnucleus of MG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.62638
Lung adenocarcinoma_LUAD_TCGA-75-6211-01A-11R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ECSIT	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2AphosphoS5_SK-N-MC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary motor cortex (area M1, area 4)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.13351
MAX_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LTBR_INHIBITION - 35 Day_GDS2004_737_mouse_Lymph nodes  (MG-430A)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
ZNF750_KD_GSE38039_696_human_HaCaT keratinocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
COR-L26	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.1808
978_C14ORF178_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.548656
superficial stratum of r8BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.14272
POLR2A_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NR1H4::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.245
CHCHD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.6053
PGLYRP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24902
7424_RPAP3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.791031
H3K4me1_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
rectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.250301
RB-80-RO52_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.26883
H3K27ac_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
colorectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.250953
proton motive force-driven mitochondrial ATP synthesis	GO Biological Process Annotations 2025	1.0	null
EMP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.16562
BRD-K12238169_-666_A549_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Perturb_3362_KO_Bach2_SRP267100	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	6.81113
CE-37-XI06_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.208114
CF-42-OS28_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.462575
hsa-miR-3913-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
JUN_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
stomach	HPA Tissue Protein Expression Profiles	1.0	2.20165
20032505-TableS5	GeneSigDB Published Gene Signatures	1.0	null
Kidney Chromophobe_KICH_TCGA-KO-8408-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MOPC-315 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.001
Pathways of neurodegeneration - multiple diseases	KEGG Pathways 2026	1.0	null
CDX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.5456
H3K27ac_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
IGROV1	BioGPS Cell Line Gene Expression Profiles	-1.0	-0.896682
POLR2AphosphoS5_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 852.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.92507
POLR2A_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CRCGN009_HEPG2_24H:L07	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.83415
AR	ChEA Transcription Factor Targets	1.0	null
CTCF_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_ZFX_18555785	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
superficial stratum of r1BI	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.36731
EGR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE127790_10_v_2_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HDAC2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BC-10-SB73_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.384047
GA-47-MH68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201695
H3K9ac_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
UBTF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fat_a.V1	HPA Tissue Sample Gene Expression Profiles	1.0	1.03267
OB-17-DQ74_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.715575
MCF-7/LCC9 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.993
TRIM28_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RELA_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mitochondrial part	GO Cellular Component Annotations 2015	1.0	null
Perturb_11635_KD_IL15_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	18.0044
H3K4me3_HeLa-S3_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-P8-A5KC-11A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE140322_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_WI38_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE171837_0_v_3_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE202603_3_v_2_bhlhe40_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of pedal digit skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
emboliform nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.18357
1365_CD3EAP_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.703611
Nr1h4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	15.6197
CEBPB_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF384_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PC-68-HN64_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.376123
POLR2A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
S0-EE-YEKU_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.3598
17660535-TableS4c	GeneSigDB Published Gene Signatures	1.0	null
GSE214442_0_v_1_pak4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE175787_4_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
RCOR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SD-69-IX30_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.267952
CRCGN015_HEPG2_48H:C22	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.41683
Paraflocculus, molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.2878
MAX_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SK-MEL-28	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.26653
LC-96-WR85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.303501
Anterior cingulate area, ventral part, 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.19082
K562	BioGPS Cell Line Gene Expression Profiles	1.0	1.00348
TP63	ChEA Transcription Factor Targets	1.0	null
BCLAF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE202434,GSE202438_8_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
9886_XAB2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.964693
cytoplasmic part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.046095
H3K4me3_B cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.046446
Combined oxidative phosphorylation deficiency 43	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.186
JUN	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-Q2-A5QZ-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CRCGN012_HEPG2_24H:G14	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.31065
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E3-01A-21R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BB-86-BE19_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.773862
H3K4me1_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
LC-12-VN85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.680126
hsa-miR-30e	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
GSE140997_4_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SPIN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.58134
SP1	ENCODE Transcription Factor Targets	1.0	null
hippocampus (hippocampal formation)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16175
GSE184087_0_v_1_tert_human	RummaGEO Gene Perturbation Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5083-01A-02R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POR_KO_GDS1678_762_mouse_Jejunum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
hippocampus (hippocampal formation)_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.953679
mitochondrion	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.173543
KP-N-YS	GDSC Cell Line Gene Expression Profiles	1.0	1.6785
H3K4me3_WI38_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
7390_RNF40_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.11596
H3K4me3_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HDAC2_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CC-03-PW00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200928
POLR2AphosphoS5_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE153189_1_v_3_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MZ in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.184
NDUFB5	Pathway Commons Protein-Protein Interactions	1.0	null
PMC10247733-41408_2023_863_MOESM4_ESM.pdf-600-ZNF174_ZNF174	Rummagene Transcription Factor Associations 2026	1.0	null
hela cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.168167
MYC_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SW48	GDSC Cell Line Gene Expression Profiles	-1.0	-2.31984
YY1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFA9	Pathway Commons Protein-Protein Interactions	1.0	null
colorectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.334498
H3K9ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
6515_POLD1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.53839
BE-82-TS38_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.24745
superficial stratum of ITTh	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01263
AD-85-ME82_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.43022
MAVS	Pathway Commons Protein-Protein Interactions	1.0	null
SIN3A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
8744_TBRG4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.509821
MAX_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
chr11_78135840_T_C_b38	GTEx eQTL 2025	1.0	1.03388
ACHN	CCLE Cell Line Gene Expression Profiles	-1.0	-1.50976
GSE221577_4_v_5_pik3r1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GATA2_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.1632
RCOR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Chemical carcinogenesis - reactive oxygen species	KEGG Pathways 2026	1.0	null
H3K4me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SIX5	ENCODE Transcription Factor Targets	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A5SH-06A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NF-21-HQ00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.938856
HSF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.974
GSE240645_1_v_0_u90926_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC7300082-41598_2020_66556_MOESM11_ESM.xlsx-Supplementary_Table_10-HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
MOLT-4 cell	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
BD-01-RI07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.273216
paclitaxel_homo sapiens_gpl570_gse39042	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
H2AFZ_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-LP-A4AV-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AC-30-XU83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.605803
5420_N6AMT1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.701883
CTCF_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lymphoblastoid cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
PMC9314667-Table_1.xlsx-Regulons-MITF_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
Folium-tuber vermis (VII), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.61161
Thermogenesis	KEGG Pathways 2026	1.0	null
EP300_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFB3	Pathway Commons Protein-Protein Interactions	1.0	null
CD8+_Tcells	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.84542
NCI-H2081	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.81374
H2AFZ_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE149901_2_v_1_anlotinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-3A-A9I5-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE242333_0_v_2_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NDUFA8	Pathway Commons Protein-Protein Interactions	1.0	null
TIMMDC1	Pathway Commons Protein-Protein Interactions	1.0	null
envelope	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
hsa-miR-614	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
Avian pallium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
TBX19	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.9184
TRIM28_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11637_KD_IL17RE_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.87603
496100622_HIP_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.32684
zona incerta, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.44004
DBTRG05MG	CCLE Cell Line Gene Expression Profiles	1.0	1.42179
POLR2A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HD-18-YL30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216177
H2BK5ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
IC-18-TY61_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.29376
Kidney renal papillary cell carcinoma_KIRP_TCGA-MH-A560-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.29298
PMC7003708__F1	PFOCR Pathway Figure Associations 2023	1.0	null
EOMES-20176728-TROPHOBLAST STEM CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
AF-99-HA02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.656649
gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
H3K4me3_cardiac mesoderm_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
G130	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14624
POLR2AphosphoS5_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPD_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-B1-A656-01A-11R-A31O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RAD21_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JC-06-ED36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.97771
GSE62843,GSE64371_4_v_0_furan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC8519939-41525_2021_248_MOESM5_ESM.xlsx-NFE2L2_V2-Gene_name_NFE2L2	Rummagene Transcription Factor Associations 2026	1.0	null
non-small cell lung carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.70434
EFO-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.916665
FA-63-WI26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.88996
IB-67-WH43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.476527
EP300	ChEA Transcription Factor Targets	1.0	null
2204_DHX16_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.08106
9886_XAB2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.73985
JA-85-SW39_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.246348
GSE149943_2_v_3_cd8a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Gonadal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.022
GB-57-XV52_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.325005
5016_MFAP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.68015
GSE102505_6_v_2_tunicamycin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Sarcoma_SARC_TCGA-MB-A5Y9-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1419	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.684713
7438_RPL14_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.516056
PPARG	ChEA Transcription Factor Targets	1.0	null
Lysosomal storage disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.022
JcP contribution to LTL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.76162
GATA3_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ECGI10	CCLE Cell Line Gene Expression Profiles	-1.0	-1.57198
A 438079	DeepCoverMOA Drug Mechanisms of Action	1.0	0.31
H3K79me2_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC12678582-41698_2025_1153_MOESM5_ESM.xlsx-Sheet1-Common_genes_between_OVCA420-ZNF217_and_MCF7_157_965_1122_ZNF217	Rummagene Transcription Factor Associations 2026	1.0	null
immune system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.04498
MOR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.896789
PMC10684125-cm9-136-2712-s001.xlsx-Sheet1-HES1_HES1	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_GM18526_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
whole body	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Perturb_11652_KD_MAP3K6_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.88026
GSE81803,GSE81912_0_v_5_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
6861_PSMC4_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.784353
1408_CDC5L_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.764094
Brain - Frontal Cortex (BA9)	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.957944
9629_ATP5MD_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.505908
JHOC5	CCLE Cell Line Gene Expression Profiles	-1.0	-2.06285
7455_RPL27_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.728075
NFIC_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acquired metabolic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.323
HCC1806	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.04231
CTCF_fibroblast of lung_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
estradiol_mus musculus_gpl4134_gse23072	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Ubiquinone-1	HMDB Metabolites of Enzymes	1.0	null
urinary tract	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
azurophil granule membrane	GO Cellular Component Annotations 2025	1.0	null
RFX5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
salivary gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Novikoff hepatoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.56
BB-87-SF89_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.804928
posterior (caudal) superior temporal cortex (area 22c)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.34205
6517_POLD3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.793452
PA-64-LE28_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.235719
H3K4me3_HepG2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H4K5ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
7185_RBM8A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.514044
16651414-Supp4	GeneSigDB Published Gene Signatures	1.0	null
superficial stratum of TTe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08641
MYBL2	ENCODE Transcription Factor Targets	1.0	null
t2d	GeneRIF Biological Term Annotations	1.0	null
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.029
FOXP2	ENCODE Transcription Factor Targets	1.0	null
NCI-H2141	GDSC Cell Line Gene Expression Profiles	1.0	1.99018
Optic atrophy 11	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.071
SPI1	ENCODE Transcription Factor Targets	1.0	null
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.519
H3K4me3_cardiac mesoderm_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
KARPAS299	CCLE Cell Line Gene CNV Profiles	-1.0	-1.68403
BA-40-KU28_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.221062
TAF1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
retina	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.078975
EE-02-BO83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.209438
Nr5a1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	23.0928
Gustatory areas, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.73769
GSE227592_6_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
outer SZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09632
PMC6964096__F4	PFOCR Pathway Figure Associations 2024	1.0	null
PMC9601604-NIHMS1841143-supplement-SuppTable-2.xlsx-FOXO3-specific_targets-FOXO3-specific_targets_1218_FOXO3	Rummagene Transcription Factor Associations 2026	1.0	null
FOSL2_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RNASE7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59858
Perturb_14389_KD_PAX8_SRP276625	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	13.9769
MCF7_CEP-33779_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0128859
TRIM28	ENCODE Transcription Factor Targets	1.0	null
PB-66-RW16_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.276275
MYC_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
metabolic process	GO Biological Process Annotations 2015	1.0	null
colonic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.226155
molecular layer of caudal subiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.17055
r10 part of the inferior olive	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.20653
7449_RPL23A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.591784
7454_RPL27A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.504662
496100305_PCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.16081
GSE147876,GSE147877_2_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZBTB7A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nadh dehydrogenase activity	GO Molecular Function Annotations 2015	1.0	null
Type 2 diabetes mellitus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.398
caudal prosubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.32925
PMC9270251-mmc2.xlsx-2_Filtered_DEGs_Control_vs_KD_2-Gene_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
CD-05-PU90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.345908
Perturb_11674_KD_SHFM3_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.34806
XB-75-YN01_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.410904
Liver Neoplasms, Experimental	CTD Gene-Disease Associations	1.0	1.7107
S0-EE-XYMJ_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.245687
r7 portion of the hypoglossal motor nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33182
261_ALDOA_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.717421
BRD-A39996500_radicicol_HS578T_3_h_10_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
DA-60-KU38_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.234829
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A6JU-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
inferolateral temporal cortex (area TEv, area 20)_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.56078
H3K9ac_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZBTB7A	ENCODE Transcription Factor Targets	1.0	null
PMC7697260__F3	PFOCR Pathway Figure Associations 2023	1.0	null
5762_NPAT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.554399
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7325-01B-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE65617_0_v_4_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
LB-58-KL25_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.542638
RUNDC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01173
ETS2	MotifMap Predicted Transcription Factor Targets	1.0	null
irf8_00000000_splenic_cd11bplusgrdash1_hdash2b_gen_background_lof_mouse_gpl6887_gse39228	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.200837
RVH421	CCLE Cell Line Gene Expression Profiles	1.0	1.72581
Supplemental somatosensory area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01103
BACH1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MANSC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00812
MZ in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.29954
HK2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.55875
8599_SUPT6H_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.704864
KPL-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.862253
Perturb_18142_KO_Cmklr1_SRP345542	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.59139
FB-66-UU47_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.727913
5074_MIIP_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.513673
AE-56-RB57_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.426088
EE-35-XA42_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.209246
GATA3_T47D_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TIM22 mitochondrial import inner membrane insertion complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.992
ventrolateral prefrontal cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09324
amygdaloid complex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.20312
OCIM1	CCLE Cell Line Gene CNV Profiles	1.0	1.75497
19192944-TableS4	GeneSigDB Published Gene Signatures	1.0	null
MRPL40	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05463
PC-68-HN64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.315685
MCF7_TMP195_10nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0138493
VZ in caudal subicular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.846912
head	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05082
CB-99-OG76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.369681
TPGS2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.33724
intracellular organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.186397
600MPE	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.17929
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.637
USF1_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
AD-16-HL96_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.417891
TET1	ChEA Transcription Factor Targets	1.0	null
MYOG_myocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CDK8_knockdown_63_GSE19199	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.19258
striatum_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.87114
GSE102467_1_v_2_pazopanib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HD-29-LW24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.16016
H3K4me1_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ZNF282	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.9285
primary auditory cortex (core)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.887788
Anterior cingulate area, dorsal part, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.45602
GSE209911_0_v_1_ncstn_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_11655_KD_MCFP_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.39161
9443_TWISTNB_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.862639
HE-80-BQ08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.297821
cingulate gyrus, frontal part, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.954139
SIX5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142019,GSE142021_1_v_3_ythdf2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE201657_0_v_1_ash2l_human	RummaGEO Gene Perturbation Signatures	-1.0	null
hsa-miR-3920	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
Thyroid	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.980217
WRNIP1	ENCODE Transcription Factor Targets	1.0	null
CTCF_fibroblast of lung_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE178532_1_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Aerobic respiration and respiratory electron transport	Reactome Pathways 2024	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2904-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-100-5p	MiRTarBase microRNA Targets	1.0	null
lung cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.03346
hpaec cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.800626
Liver Cirrhosis	CTD Gene-Disease Associations	1.0	1.10033
colorectal adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.263669
GSE152055_0_v_1_mpc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KNS81	CCLE Cell Line Gene Expression Profiles	1.0	1.76267
GABPA_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RPMI-7951	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.884133
FAAP100	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05205
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.20555
CRCGN008_HEPG2_24H:K02	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-3.6119
abdomen	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.081523
7504_RPS15_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.727945
PMC12238561-42003_2025_8460_MOESM2_ESM.xlsx-IDs_S05_LF_C2_3h-Unnamed_5_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
JUND_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GC-04-UF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.60508
PMC8709578-elife-69843-supp2.xlsx-MIX_Ctr-Gene_Name_MIXL1	Rummagene Transcription Factor Associations 2026	1.0	null
hippocampus (hippocampal formation)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.971303
GSE114992,GSE114993_0_v_3_irf5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
261_ALDOA_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.766819
MZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.846825
TAF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1972_CWC22_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.32444
BHLHA15	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8711
H3K27ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
macromolecular complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.041936
5733_NOL11_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.592468
Perturb_11664_KD_PROK2_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.16032
POLR2AphosphoS5_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WC-16-IR43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.406913
gastrointestinal tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.265381
Perturb_8601_KO_Pyk2_SRP285527	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.11793
GSE213228_2_v_5_irak2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TAF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168797_1_v_6_cannabidiol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HS852T	CCLE Cell Line Gene CNV Profiles	1.0	1.95897
cervix carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.512264
2521_EHMT2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.21979
SP in entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.03965
GSE171837_0_v_2_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
4371_KIAA1958_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.601016
Olfactory lobe	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.132
NV-128	DGIdb Drug Targets 2026	1.0	0.35288
HLFA	CCLE Cell Line Gene Expression Profiles	1.0	1.41684
GSE217441,GSE217443_1_v_0_ivosidenib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
FAM174C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05684
JC-05-CC41_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.233499
carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.529608
PMC11409756-13062_2024_533_MOESM1_ESM.xlsx-Sheet1-Table_S1_Differentially_expressed_genes_DEGs_regulated_by_ZFP64_through_mRNA-seq_ZFP64	Rummagene Transcription Factor Associations 2026	1.0	null
Succinate dehydrogenase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.654
extracellular matrix part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.062509
SMC3_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
superficial stratum of r9BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.01436
Sarcoma_SARC_TCGA-K1-A6RV-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6215_PELP1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.695855
mitochondrion	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE133213_6_v_15_znrf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
6539_POLR1E_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.692633
AKT1_OE_GDS2308_499_mouse_heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
striatum_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.47693
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.177
placenta	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.02014
hematopoietic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057386
HDAC6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-149	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
SPI1	ChEA Transcription Factor Targets	1.0	null
SNCA	Hub Proteins Protein-Protein Interactions	1.0	null
Wholebrain	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.64098
endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
CE-69-HJ13_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.772156
Organellar large ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.714
amygdaloid complex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.25229
H3K4me3_BE2C_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H2AFZ_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CC-51-KS26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211913
6870_PSMD2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.976154
REST_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organism form	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
QA-14-AU91_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.333456
UBTF	ENCODE Transcription Factor Targets	1.0	null
CTCF_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
REST_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
layer 5 of CCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32788
gastrointestinal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.137886
GSE98898_7_v_1_hoxa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
2501_EFR3A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.729593
ETS1	ENCODE Transcription Factor Targets	1.0	null
ATP5F1A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40697
PE-69-DO79_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.434092
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.5222
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DG-A2KJ-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF1_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7169_RBM28_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.970767
GSE211126_3_v_4_hapln1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
superficial stratum of AOB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.60433
REST_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFIC_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300-20729851-FORBRAIN_MIDBRAIN_LIMB_HEART-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Brain - Caudate (basal ganglia)	GTEx Tissue Gene Expression Profiles 2023	-1.0	-1.0373
9443_TWISTNB_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.737036
3372_GINS4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.545847
448_ARFGEF1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.56974
mitochondrial inner membrane	GO Cellular Component Annotations 2025	1.0	null
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04299
MXI1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE140322_3_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
786_BCAS2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.538566
artery	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
heart	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.08089
leukocyte disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.107456
ZBTB7A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	3.24801
AC-31-SL44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.288664
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
PMC7346435-12864_2020_6860_MOESM6_ESM.xlsx-H1_ZF_Oocyte_Specific-Gene_SymbolH_CREBZF	Rummagene Transcription Factor Associations 2026	1.0	null
MF-04-HB41_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20601
posteroventral (inferior) parietal cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09058
CHD2	ENCODE Transcription Factor Targets	1.0	null
CAL51	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.80452
KU-19-19	COSMIC Cell Line Gene Mutation Profiles	1.0	null
POLR2AphosphoS2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.612
LTBR_INHIBITION - 35 Day_GDS2005_732_mouse_Lymph nodes  (MG-430B)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
8517_STK24_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.838279
intracellular	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE223334_3_v_2_bcl11b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Alzheimer disease	KEGG Pathways 2026	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-A74K-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Human brain microvascular endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.77
GTF2F1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Optic atrophy 6	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.516
H3K4me3_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
ZMIZ1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
4554_LEPROTL1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.547379
2122_DDX46_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.571546
mediodorsal nucleus of thalamus_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.13598
GSE199606_1_v_4_ricin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
NCIH650	CCLE Cell Line Gene CNV Profiles	1.0	1.43159
HNF4A-19822575-HepG2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
6534_POLR1B_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	1.12934
cutaneous mastocytosis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.561781
BC-88-KT45_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.571941
adult retina	HPM Cell Type and Tissue Protein Expression Profiles	1.0	1.07256
CHD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5587_NEDD8-MDP1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.47862
MCF7_Streptozotocin_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0196094
TMEM223	Pathway Commons Protein-Protein Interactions	1.0	null
S0-EE-WNJ9_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238555
H3K4me3_mammary epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
7453_RPL26_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.681404
small molecule metabolic process	GO Biological Process Annotations 2015	1.0	null
6291_PHF5A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.738257
primary motor cortex (area M1, area 4)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.25229
SLC66A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00477
MAX_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE126345_4_v_5_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FOXP1	ChEA Transcription Factor Targets	1.0	null
ID-26-HX79_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.265168
S0-EE-XYMJ_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.647702
U87	BioGPS Cell Line Gene Expression Profiles	-1.0	-0.968568
H3K4me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SIN3A	ENCODE Transcription Factor Targets	1.0	null
SC-76-YF40_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.343928
Artery - Tibial	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.693715
TE11	CCLE Cell Line Gene Expression Profiles	-1.0	-1.61348
CHD1_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mitochondrion	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GA-04-SF76_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.381726
FOXA2	ChEA Transcription Factor Targets	1.0	null
CREB1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TET1-21490601-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
QE-79-XO29_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.373795
granule cell layer of the DG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.53289
intermediate stratum of TTe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.59275
CTCF_choroid plexus epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
widr cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.703945
GSE102505_5_v_0_tunicamycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Nr1h2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	15.468
subcuneiform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.856993
NCI-H2110	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.84616
GSE185944_0_v_1_pth1r_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE252857_1_v_3_prednisone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE218907_3_v_2_opa1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MAP3K9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.46259
PMC12587232-DOM-27-6894-s001.pdf-18-PPARG_PPARG	Rummagene Transcription Factor Associations 2026	1.0	null
PMC12315868-Supplemental_Data_S1.xlsx-Supplemental_Data_S1F-TP53_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
PMC9537523-41467_2022_33364_MOESM7_ESM.xlsx-scores_wilcoxon_1_MONTH_ORG-EN2_n_EN2	Rummagene Transcription Factor Associations 2026	1.0	null
RCM1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.48626
outer SZ in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.867613
GSE172295_3_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SLC25A11	Pathway Commons Protein-Protein Interactions	1.0	null
JF-30-FM28_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.315831
AD-45-YB25_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.223259
TAF7L-23326641-C3H10T1-2-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE186287_1_v_3_ufm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A23K-01A-11R-A16R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
rt1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.67
TAL1::TCF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.3409
vitamin c_mus musculus_gpl1261_gse37676	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
BRD-K28296557_Akt inhibitor IV_MCF7_6.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
AC-57-ZF49_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.251306
dorsolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.14925
BRD-A30717181_TRIAMCINOLONE DIACETATE_A549_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Nkx2-1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.8001
organelle inner membrane	GO Cellular Component Annotations 2015	1.0	null
SW 1990	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04531
Perturb_11241_KD_Csde1_SRP383422	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-12.565
1544_CHAF1A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.75535
9837_WDR70_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.566003
amygdaloid complex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.56418
GSE158834_2_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HS895T	CCLE Cell Line Gene Expression Profiles	1.0	1.52392
GSE211128_3_v_0_angptl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
heart	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
CTCF_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO680N	CCLE Cell Line Gene CNV Profiles	1.0	1.51441
Exanthema	CTD Gene-Disease Associations	1.0	1.08584
Taenia tecta, ventral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01103
NADH	DrugBank Drug Targets	1.0	null
SNU840	CCLE Cell Line Gene Expression Profiles	-1.0	-1.48105
H3K4me1_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE101546_2_v_1_setdb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11754605-41467_2025_56327_MOESM3_ESM.xlsx-R157K_vs_MSX1-Gene_name_MSX1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE229468,GSE229471_2_v_1_znf587_human	RummaGEO Gene Perturbation Signatures	1.0	null
mitochondrial respiratory chain complex I assembly	GO Biological Process Annotations 2023	1.0	null
cell lysate	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.2259
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.8697
GSE230573_1_v_0_dcaf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
ELF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFA5	Pathway Commons Protein-Protein Interactions	1.0	null
MYC_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-1596-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HA-38-ML65_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.323581
HDAC2_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
neck	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GSE151494_1_v_9_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
DNAJA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.09799
SNU886	CCLE Cell Line Gene CNV Profiles	-1.0	-2.31548
2567_EIF4E_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.891439
PMC8764619-mmc7.xlsx-supplementary_table_for_the_Ven-GSE131737_TFAP2B_target_genes_G_gallus_1347_TFAP2B	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UE-50-KK32_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.323179
PMC10831540-supplementary_table_1.xlsx-DEG_pc-S-EC2-Unnamed_24_TCF15	Rummagene Transcription Factor Associations 2026	1.0	null
AA-58-FJ71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.934495
FLNA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.64928
TCF7L2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIN3A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-Vietnam-1203_CIP048_RG4-2004(H5N1)HAAvirmut_4day-MOI-10^4_None_GSE37572	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.19552
POU2F1-27270436-VCAP-HUMAN-PROSTATE-CARCINOMA	ChEA Transcription Factor Targets 2022	1.0	null
TAF1_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
E2F4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.7501
CBX3_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE101527_0_v_1_smad4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
XRN2-22483619-HELA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
RUNX1-27514584-CHIP-SEQ-MCF-7-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
reticular nucleus of thalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.855632
mantle zone of r3Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.0527
PMC8410861-41467_2021_25544_MOESM32_ESM.xlsx-MCR-MCR_cells_-_DGE_iGCA_testis_vs_adult_testis_from_GSE112013_and_GSE124263_NR3C2	Rummagene Transcription Factor Associations 2026	1.0	null
Rectum adenocarcinoma_READ_TCGA-DC-5337-01A-01R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
paraventricular nucleus of the hypothalamus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.34975
GATA3_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BD-33-HT38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.213106
ELF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_4_KO_Pabpn1l_SRP226170	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	15.1659
Cardiovascular Diseases	HuGE Navigator Gene-Phenotype Associations	1.0	null
GSE133683_1_v_0_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
7441_RPL17_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.738085
hsa-miR-449b	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
6801_PRPF4_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.586417
liver	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
H3K4me1_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1	ENCODE Transcription Factor Targets	1.0	null
Mitochondrial large ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.72
MCF7_Ki8751_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0200591
follicular	GeneRIF Biological Term Annotations	1.0	null
GD-79-JJ38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.287907
superficial layers of caudal presubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.99373
CEBPB_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A3A1-11A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.25229
GSE213588_9_v_7_trametinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27ac_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SK-CO-1	GDSC Cell Line Gene Expression Profiles	1.0	1.55355
GB-46-CK08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.97509
5339_MTOR_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.849416
CB-16-SY72_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.734413
RD-57-WQ44_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.265606
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A6JN-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
superficial stratum of CCx (cortical plate/marginal zone)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04829
FOSL1_KO_GSE43695_681_mouse_lung, bleomycin treated	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
KM12	GDSC Cell Line Gene Expression Profiles	-1.0	-1.9201
NFIC_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
plagl2_17983586_small_intestine_lof_mouse_gpl1261_gds3010	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.370317
H2AFZ_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of upper leg skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver Diseases	CTD Gene-Disease Associations	1.0	1.12323
BCLAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BE-81-QL64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	2.31983
Sox6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	32.4618
GSE142588_2_v_1_cinobufagin_human	RummaGEO Drug Perturbation Signatures	1.0	null
CA-48-SW47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.4165
Cingulate gyrus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.208
ATF2	ENCODE Transcription Factor Targets	1.0	null
ME-42-RD46_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.249233
NDUFS3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE111881_0_v_1_znf768_human	RummaGEO Gene Perturbation Signatures	1.0	null
FF-22-NB12_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.301025
adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.114577
bone marrow	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
GSE212299_2_v_1_abi3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
colorectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.250301
BCL3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-VM-A8CF-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6460_PLRG1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	2.23791
H3K4me3_GM12865_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE227592_8_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
UBF1/2-26484160-CHIP-SEQ-HMECS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE233548_2_v_0_plscr1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
duodenum	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
USF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1583_CHMP3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.925033
GSE231641_0_v_1_robo1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SAP30	ENCODE Transcription Factor Targets	1.0	null
Cataract 38	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.095
WBP1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1533
TCFAP2C-20176728-TROPHOBLAST STEM CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
IF-23-HY54_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211636
temporal muscle trigeminal motor cell group	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.38849
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AO-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE217132_0_v_1_pfkfb4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
stratum pyramidale of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.01569
NCI-H3118	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.71319
16872506-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
PMC12238561-42003_2025_8460_MOESM2_ESM.xlsx-IDs_S12_LF_C1_8h-Unnamed_5_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
SIN3A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
QC-63-VN72_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.631654
GSE121319_1_v_2_gprc5a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Pons	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.047
sw-403 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.2671
AA-23-FM46_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.669702
FOSL2_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nifedipine	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.38
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.88717
GSE229973_4_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BRD-K92571446_WZ-3105_A549_24_h_3.33_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Respiratory epithelium	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.713
USF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OC-25-TL77_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.232203
pancreatic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.463013
digestive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.065411
BB-89-HE42_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.225351
NB-05-VI80_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.295136
GATA5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.553
TBP_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXA2-19822575-HepG2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
pc-14 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.00632
XC-81-LR46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.339648
DA-86-GO43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.350046
KDM1A	ENCODE Transcription Factor Targets	1.0	null
GSE144838_2_v_3_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5169
Secretory vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GSE216043_7_v_6_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BB-86-BE39_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.267901
Pineal gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.872
AOB, outer plexiform layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.78935
POLR2AphosphoS5_SK-N-MC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mitochondrial envelope	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Kidney renal papillary cell carcinoma_KIRP_TCGA-Y8-A8RZ-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NEUROG1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7317
COR-L105	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.94967
E2F6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FA-10-DN36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.436432
FLI1-21867929-CD8-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
COLO-818	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05694
H3K4me3_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
FOSL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC11892598-pnas.2417308122.sd05.xlsx-DEGs_of_RORC_cluster-Unnamed_2_RORC	Rummagene Transcription Factor Associations 2026	1.0	null
cerebellar cortex_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.8454
H3K4me3_astrocyte of the spinal cord_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PAX5_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Adenoma_Adrenal gland_GSE8514	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-2.14521
NCOR-22424771-293T-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
epididymis	HPA Tissue Protein Expression Profiles	-1.0	-1.27572
emboliform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.19092
JD-87-MR82_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236001
external part of AOV	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.51077
AC-41-MB45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.364541
organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.044121
GSE214823,GSE214824_0_v_2_crtc2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZR7530	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.823021
GSE207135_2_v_0_sod2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
KD-04-TL80_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.469555
CB-31-UO16_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.303901
Lung adenocarcinoma_LUAD_TCGA-05-5429-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TF-77-DW08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.260907
CTRL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30997
AE-56-RB57_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.297021
BA-84-WN26_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.2436
AF-99-HA02_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211351
USF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNU-601	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.954661
YMB1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.44606
7836_SF3B2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.12513
Inherited metabolic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.611
SIX5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPD_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
2132_DDX56_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.803259
MXI1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
874_BOP1_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.607916
GSE193258,GSE193259_5_v_12_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GATA3-21867929-TH1-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
BRD-K92571446_WZ-3105_A549_24_h_1.11_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AP-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
large intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.133477
hsa-miR-4284	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
POLR2AphosphoS2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Disease progression in age-related macular degeneration	GWAS Catalog SNP-Phenotype Associations 2025	1.0	0.530103
outer CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.22741
H3K4me3_fibroblast of lung_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A9FS-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-52-7810-01A-11R-2125-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27ac_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
4149_INTS4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.525153
hsa-miR-3173-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
ZNF214	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.5289
Type I spiral ganglion neuron_Brain_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
Brain disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.476
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.01779
IB-87-ZR37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.437095
NCIH1395	CCLE Cell Line Gene Expression Profiles	1.0	1.71914
CRCGN014_HEPG2_24H:F22	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	-1.0	-2.19261
H3K4me3_epithelial cell of esophagus_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11624_KD_DUSP11_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.17535
RAD21_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.226
ED-93-KF69_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.312014
superficial stratum of r5Co	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.02044
Weight Loss	CTD Gene-Disease Associations	1.0	1.45777
GSE253056_0_v_1_erythropoietin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
RUNX1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.93746
testis	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.1648
7833_SF3A2_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.716034
H3K4me3_GM12875_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SUZ12	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-4691-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
RC-21-IF98_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200593
POLR2A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE229468,GSE229471_0_v_1_znf587_human	RummaGEO Gene Perturbation Signatures	1.0	null
SMARCA4	ChEA Transcription Factor Targets	1.0	null
MAZ_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
respiratory chain complex i	GO Cellular Component Annotations 2015	1.0	null
ERG	ChEA Transcription Factor Targets	1.0	null
SRF_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Parkinson's Disease_Substantia Nigra_GSE7621	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.62622
SD-51-LL22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.471564
MF-04-HB41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.518362
bronchoalveolar system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.061603
BA-84-WN26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.953693
GSE200352_5_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FOXA1_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TD-48-XJ84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.218536
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	3.24385
TARDBP_KD_GDS3730_118_human_HEK293E	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
RFX5_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Dentate gyrus, granule cell layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.49532
POLR2AphosphoS5_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE140997_10_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
AC-50-FR41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.252042
CBX3_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2580_EIF6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.805021
H3K4me1_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Immune System	Reactome Pathways 2024	1.0	null
FOS_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AM-38	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.9204
GATA1_G1E-ER4_mm9_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NC-01-ET52_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.213418
SC-68-JQ26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.328478
EB-09-JJ93_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.636988
YY1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE255432_7_v_3_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
female reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
RD-64-KA33_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.228253
JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fertilizedegg	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-2.72409
A-CA-04-2009(H1N1)_6Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.2263
membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K4me3_MCF-7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
BRD-K16664969_GTP 14564_HCC515_24.0_h_10.0_um	LINCS L1000 CMAP Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GF-05-GQ05_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.268522
intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.214202
gastrointestinal tract	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
skin_5f	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.29937
GSE131649_4_v_5_hemin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
IA-27-CK10_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.516159
GSK3A_KD_GDS4305_184_human_U937 acute myeloid leukemia cell line	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
FOXH1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.4745
motor nucleus of trigeminal nerve	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.31349
LE-40-JW92_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.915323
ZMIZ1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
parietal neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.23099
HB-06-WU12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.952154
female reproductive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059854
GSE199204,GSE211619_4_v_2_glutamine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NDUFS6	Pathway Commons Protein-Protein Interactions	1.0	null
BB-82-TP51_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.261907
CTCF_K562_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SRC_overexpression_277_GSE15161	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.64839
H4K91ac_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
TAF7L	ChEA Transcription Factor Targets	1.0	null
GSE193541_1_v_2_nifurtimox_human	RummaGEO Drug Perturbation Signatures	1.0	null
Lysosomal membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
fluoxetine_mus musculus_gds2803	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A7SK-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TBL1XR1	ENCODE Transcription Factor Targets	1.0	null
artery	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.082548
UF-44-NQ36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.24666
FB-66-UU47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.17909
navicular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.72123
PMC12354803-42003_2025_8643_MOESM2_ESM.xlsx-2w_TP63_positive-Gene_TP63	Rummagene Transcription Factor Associations 2026	1.0	null
FD-59-TC81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.332889
gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055558
Prefrontal cortex	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.492
bexarotene_homo sapiens_gpl96_gds2777	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE193258,GSE193259_5_v_4_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SREBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.9651
anterior digastric muscle trigeminal motor cell group	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.13987
DC-51-WE27_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.386253
Cytoplasmic vesicle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Blood	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
3308_GBF1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.586215
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A23Z-01A-11R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cyclophosphamide_mus musculus_gpl13209_gse27440	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE116810_2_v_0_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE165122_2_v_3_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_B cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CHD2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE183335,GSE183351_1_v_2_lin28b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
vascular endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.121664
UF-27-HS98_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.71354
GSE193993_5_v_6_sstr2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
E2F6	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-5886-01A-11R-1592-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ELF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.906
oxidoreductase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.086024
GSE252857_2_v_3_prednisone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC8020666-pnas.2015855118.sd11.xlsx-LPS_strongerResponse-Macaque_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
POU2F2_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7375_RNF20_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.601644
LS1034	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.16578
POLR2A_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4030113__F3	PFOCR Pathway Figure Associations 2023	1.0	null
PMC8481886-Table_2.xlsx-A_subsets-AF_MSC_UdRPC_HSC_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
non-small cell lung cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.988032
Perturb_11610_KD_BPIL1_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.38773
PMC3526425-1471-2164-13-572-S3.xlsx-STAT6-STAT6_STAT6	Rummagene Transcription Factor Associations 2026	1.0	null
Hyperplasia	CTD Gene-Disease Associations	1.0	1.59451
MAX_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SARS-CoV_0Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.2854
primary auditory cortex (core)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.95043
mitochondrial part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.179752
Primary somatosensory area, mouth, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.86863
GSE248858_1_v_7_tcpobop_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Excretory gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE74251_2_v_3_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
8317_SPAG7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.511987
cellular_component	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.189222
MAX_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GABPA_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Anterior cingulate area, ventral part, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.30073
UACC-893	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.27637
PMC7801680-41598_2020_79740_MOESM9_ESM.xlsx-STAT3_target_genes_in_N1-GOPC_STAT3	Rummagene Transcription Factor Associations 2026	1.0	null
hsa-miR-4795-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
ELK1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8020666-pnas.2015855118.sd11.xlsx-LPS_attenuatedResponse-Unnamed_19_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
7459_RPL31_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.608363
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.48283
Cerebral gyrus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.208
PECAPJ34CLONEC12	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58149
ELK4	ENCODE Transcription Factor Targets	1.0	null
GSE239688_4_v_1_canagliflozin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7842_SFPQ_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.894644
POLR2A_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
trunk	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064492
GSE144796_3_v_0_linagliptin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CRCGN014_HEPG2_3H:N07	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	1.0	2.038
16643655-1300GenesList	GeneSigDB Published Gene Signatures	1.0	null
hMPV_48Hour_18234263_GSE8961	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.79905
GSE240027,GSE240030_5_v_2_atrx_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EMSY	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02954
POLR2A_lung_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM10847_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE116492,GSE116495_3_v_2_stag2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K9ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CAL-33	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.81288
RARA_KD_GDS4065_42_human_MCF-7	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
culture medium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.322779
GTEx Blood 20-29 vs 60-69	GTEx Tissue-Specific Aging Signatures	-1.0	-12.2654
HE-34-ZC14_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.207032
CTCF_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6781638__F4	PFOCR Pathway Figure Associations 2023	1.0	null
3286_GART_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.664612
primary motor-sensory cortex (samples)_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.04
CHD7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4753-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
H3K4me3_epithelial cell of proximal tubule_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KDM4A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nucleoid	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.404804
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-7044-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Micronuclei, Chromosome-Defective	CTD Gene-Disease Associations	1.0	1.2475
Adipocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.608
H3K4me3_fibroblast of mammary gland_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Lymphoblastic leukemia cell line	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.319
9617_URB1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.53736
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A57M-01A-51R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hypertension	CTD Gene-Disease Associations	1.0	1.18259
APLP2_KO_GDS4414_371_mouse_prefrontal cortex	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
2217_DHX8_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.28338
1148_CACTIN_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.22105
GSE197850_4_v_0_glucagon_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF263_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
kidney aging	GAD Gene-Disease Associations	1.0	null
Female reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
dorsal peduncular cortex, intermediate part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.59275
r6 part of ventral gigangocellular reticular area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.807
H3K9ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3619-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
Respiratory chain complex II	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.69
GSE165682_2_v_1_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
outer SZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.07495
PML_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JARID2-20075857-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.99903
FC-36-SU62_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.294372
4208_ISG20L2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.618914
SK-MEL-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.929937
Acquired Immunodeficiency Syndrome	HuGE Navigator Gene-Phenotype Associations	1.0	null
intermediate stratum of m1AL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.26914
H3ac_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Lobules IV-V, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00806
AA-18-GQ83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.299437
CTCF_kidney epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NUDUL1	CCLE Cell Line Gene Expression Profiles	1.0	1.53529
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MZ in dorsomedial parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.51701
H3K4me3_cardiac fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Uvula (IX)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.25777
RA-27-ST16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.21694
FA-88-II68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.889709
NCI-H23	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.17005
pancreatic cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.099027
H3K4me3_GM06990_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
gastric cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.110149
7449_RPL23A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.58981
GSE62843,GSE64370_4_v_3_furan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
r2 part of anteroventral cochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.76082
SIN3A_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mitochondrial respiratory chain complex assembly	GO Biological Process Annotations 2023	1.0	null
ZNF143_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NDUFB11	Pathway Commons Protein-Protein Interactions	1.0	null
SIX5_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9270251-mmc2.xlsx-4_Filtered_DEGs_Control_vs_KD_3-Gene_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.156863
PMC7657662__F2	PFOCR Pathway Figure Associations 2023	1.0	null
sublayer 6a of CCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.1422
Genetic Predisposition to Disease	HuGE Navigator Gene-Phenotype Associations	1.0	null
AOB, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.39436
hsa-miR-4744	TargetScan Predicted Conserved microRNA Targets	1.0	0.37496
B-CPAP cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.658
H3K4me3_fibroblast of pulmonary artery_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.854507
H3K4me3_SK-N-SH_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
A-Vietnam-1203_CIP048_RG4-2004(H5N1)NS1trunc_12Hour_None_GSE43204	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.68993
primary somatosensory cortex (area S1, areas 3,1,2)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.36656
GSE102505_1_v_2_tunicamycin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
COPD - Chronic obstructive pulmonary disease_Lung Tissue_GSE1650	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.39799
DA-35-DU85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.65342
hsa-miR-4799-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.389112
GABPA_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NKX2-3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2149
NDUFA2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE233679_14_v_9_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GB-46-CK08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.85321
H3K4me3_MEL cell line_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1129_SPOUT1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.538754
MAX_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KAT2B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IF-92-OK68_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217826
EP300_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF384	ENCODE Transcription Factor Targets	1.0	null
NF-21-HQ00_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.415295
testosterone_mus musculus_gpl1261_gse17553	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE210662_3_v_1_znf165_human	RummaGEO Gene Perturbation Signatures	1.0	null
mitochondrial electron transport, nadh to ubiquinone	GO Biological Process Annotations 2015	1.0	null
H3K4me3_HeLa-S3_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
A-498	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.593
Paraflocculus, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.34221
9656_USP39_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.519696
BB-73-ZW70_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.311345
Lung transplant rejection_Lung Tissue_GSE2018	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.92412
EPCAM	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00837
GFI1B-20887958-HPC-7-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Eltrombopag	DeepCoverMOA Drug Mechanisms of Action	-1.0	-0.36
UF-85-NE30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.221514
SF295	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35903
9911_XRN2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.611394
kato-iii cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.650966
MDA-MB-134-VI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.96109
GSE231648_1_v_3_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PPARG-20887899-3T3-L1-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
primary visual cortex (striate cortex, area V1/17)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.61432
MXI1_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_6680_KO_SREBF1_SRP255872	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.93945
GSE129287_0_v_1_cd200_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
WB-92-TT14_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231319
GE-63-WI86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.435227
Prostate adenocarcinoma_PRAD_TCGA-KK-A59X-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RERF-GC-1B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04531
CF-03-QN99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.338143
FB-66-UU47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.224247
H3K9ac_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
8594_SUPT16H_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.607943
COX14	Pathway Commons Protein-Protein Interactions	1.0	null
GSE248045,GSE248046_0_v_1_runx1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
7441_RPL17_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.658979
GSE233679_5_v_8_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GABPA_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7950_SLBP_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.554666
GSE199204,GSE211619_4_v_1_glutamine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Optic atrophy 12	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.301
retropontine reticular area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.46029
MEIS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.432
HFL-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.704
CTCF_foreskin fibroblast_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mantle zone of r5BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.26663
JHUEM3	CCLE Cell Line Gene Expression Profiles	1.0	2.15615
GSE191105_2_v_3_nat1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.948328
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.153
A-CA-04-2009(H1N1)_48Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.40667
Perturb_6072_KD_SUMO2_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
6555_POLR3A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.587166
DC-47-KV62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.365799
stratum lacunosum-moleculare of caudal CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.18202
Lung adenocarcinoma_LUAD_TCGA-64-1676-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE207302,GSE207303_0_v_2_tp53bp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HDAC2_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6747_PRIM1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.618993
8670_TAF8_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.723985
GABPA_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11651_KD_MAP3K6_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	11.3857
GSE42805,GSE42811_1_v_0_cocaine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE158834_7_v_4_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
nadh dehydrogenase complex	GO Cellular Component Annotations 2015	1.0	null
Respiratory chain complex I, mitochondrial	CORUM Protein Complexes	1.0	null
membrane	GO Cellular Component Annotations 2015	1.0	null
GSE248858_4_v_0_tcpobop_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_SK-N-MC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1	ENCODE Transcription Factor Targets	1.0	null
breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.089867
IRF4_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MCF7_Roscovitine_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0141227
BCS1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.48057
NFIC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7491318__F11	PFOCR Pathway Figure Associations 2024	1.0	null
cerebellar cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.21693
Head and Neck squamous cell carcinoma_HNSC_TCGA-DQ-7588-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EX-A69L-01A-11R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE207301,GSE207303_0_v_2_tp53bp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
RFX5	ENCODE Transcription Factor Targets	1.0	null
primary motor cortex (area M1, area 4)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.841121
Brain Lower Grade Glioma_LGG_TCGA-HT-7684-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HE-99-KP87_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.360204
Retrosplenial area, ventral part, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.36829
Accessory olfactory bulb, mitral layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.01954
medial group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.928674
ELK1	ENCODE Transcription Factor Targets	1.0	null
CTCF_GM12865_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6867_PSMD13_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.579726
Mental Disorders	CTD Gene-Disease Associations	1.0	1.13279
organelle envelope	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
paraventricular nuclei, left of thalamus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.10411
HIV - Human immunodeficiency virus infection_Peripheral blood mononuclear cell_GSE2171	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	3.41083
DNAJB1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE226115,GSE226116_2_v_0_doxorubicin_human	RummaGEO Drug Perturbation Signatures	1.0	null
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.13897
paclitaxel_homo sapiens_gpl570_gse11550	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
lymphocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.067453
ND-39-PO34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.893581
Prostate adenocarcinoma_PRAD_TCGA-HC-7747-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.504207
EA-18-FP00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.12559
hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.049175
RPL41	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21657
cerebellar cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.31861
H3K4me3_fibroblast of gingiva_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Acute Coronary Syndrome	DisGeNET Gene-Disease Associations	1.0	null
SCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.35182
Perturb_11649_KD_LOC51136_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.0805
Combined oxidative phosphorylation deficiency 29	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.29
PMC6526899__F3	PFOCR Pathway Figure Associations 2024	1.0	null
GATA1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
NFATC1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
retinol	GeneRIF Biological Term Annotations	1.0	null
Respiratory chain complex I	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
9969_ZBTB11_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.943404
CD8_Naive_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.49692
4164_IPO7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.557888
RERF-LC-KJ	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.03281
LS 180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.948156
CTCF_GM12871_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.18408
HCFC1	ENCODE Transcription Factor Targets	1.0	null
medial habenular nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.884121
Lung adenocarcinoma_LUAD_TCGA-64-1678-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE234043_0_v_1_abcb1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Mitochondrial membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.072
GSE213588_10_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ACHN	BioGPS Cell Line Gene Expression Profiles	-1.0	-1.00903
ctnnb1_21914722_ls174t_lof_human_gpl570_gds4386	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.068075
tissues, cell types and enzyme sources	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
DA-18-QP05_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.337571
mitochondrial respiratory chain complex i	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
BC-75-CK91_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.294884
anterior group of nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.874582