association	dataset	threshold value	standardized value
macromolecular complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04131
CTCF_cardiac fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IGROV-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.958
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-9_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
Autoimmune disease of musculoskeletal system	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
layer 4 of PCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.19002
CF-24-KQ98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.248176
ZNF143_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFK_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW837	CCLE Cell Line Gene CNV Profiles	1.0	1.37119
Primary somatosensory area, nose, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.41949
GSE94849_7_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_LNCaP clone FGC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
JUN_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
megakaryocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.913933
ganglion	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
DD-65-SA37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.29369
Head	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K27me3_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE242367_1_v_0_sorafenib_human	RummaGEO Drug Perturbation Signatures	1.0	null
496100347_PCx_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.09874
Acute Myeloid Leukemia_LAML_TCGA-AB-2959-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RFX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.6868
anterior (rostral) cingulate (medial prefrontal) cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.15037
CHD2	ENCODE Transcription Factor Targets	1.0	null
GC-04-UF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.224675
PMC8497824-Table_4.xlsx-Stage_4_EOMES_vs_Ctrl-Unnamed_1_EOMES	Rummagene Transcription Factor Associations 2026	1.0	null
head and face region of M1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.12663
H3K4me3_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE89018_12_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE48812_11_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
Blood coagulation disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.32
GSE247775_1_v_0_tmprss2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
integral component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
7444_RPL19_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.58571
H2AFZ_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HT-115	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.931494
FPGS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11621
6869_PSMD1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.05167
CHD2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BSCL2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE211126_1_v_4_hapln1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE250560_1_v_0_foxo1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
posterior (caudal) superior temporal cortex (area 22c)_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.953845
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
2321_DNTTIP2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.52438
Prostatic Diseases	CTD Gene-Disease Associations	1.0	1.25338
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MECOM-23826213-KASUMI-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
female reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
GATA1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-4733-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
CTCF_kidney epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242647_2_v_0_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EB1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.44175
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.265
7507_RPS18_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.13449
GSE221577_3_v_5_pik3r1_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4731-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
H3K9ac_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM13976_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-3184	TargetScan Predicted Conserved microRNA Targets	1.0	0.714812
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A19B-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
E2F4_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MERO48A	DepMap CRISPR Gene Dependency	1.0	2.46398
GSE174383_4_v_0_ly6d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
lateral part of alar m1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.09306
POLR2A_K562_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-P8-A6RX-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FD-91-OK66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.463257
cingulum bundle, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.79702
Lung squamous cell carcinoma_LUSC_TCGA-60-2713-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_3266_KO_mir181a1/mir181b1_SRP015851	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-10.2509
NANOG	ChEA Transcription Factor Targets	1.0	null
KG1C	CCLE Cell Line Gene CNV Profiles	1.0	1.3602
GSE202434,GSE202438_7_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_GM12866_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE165682_4_v_3_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE102486,GSE102490_1_v_5_setdb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BHLHE40_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168807_6_v_7_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_GM10248_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE201401_2_v_0_fgfr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
KP-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.0163
GSE155305_3_v_0_ifitm3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE100102_4_v_5_cgas_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Glucose Intolerance	CTD Gene-Disease Associations	1.0	1.11877
olfactory tubercle, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.52841
Perturb_1179_KD_RUNX1_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE94849_1_v_5_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
17676974-TableS1	GeneSigDB Published Gene Signatures	1.0	null
phenotypic abnormality	GWASdb SNP-Phenotype Associations	1.0	0.028264
GSE147876,GSE147877_2_v_10_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Primary immunodeficiency disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
hsa-let-7g	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
Acute Myeloid Leukemia_LAML_TCGA-AB-2811-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOXM1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12864_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE100316_5_v_6_mtor_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TRIM28-19339689-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE186810,GSE186813_3_v_1_furin_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MXI1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GA-59-RW04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.42529
cisplatin_homo sapiens_gds3910	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
G22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.897971
mRNA_SALL4_19060217	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
PMC10248509-Data_Sheet_5.CSV--GSE58294_DE-genes_AND_GSE66724_DE-Genes_AND_GSE41177_DE-Genes_NOT_Autophagy_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE158632_2_v_4_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE226091,GSE226092_0_v_1_sall1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE224131_5_v_1_mafb_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE160373_6_v_4_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
primary auditory cortex (core)_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.3008
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM06990_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
myeloma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.29118
SPI1-22096565-GC-B-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE214212_2_v_0_chd6_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CAR-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.923249
GSE163240_3_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE229973_4_v_7_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_fibroblast of pulmonary artery_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE154767_2_v_5_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE202434,GSE202438_9_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
periventricular stratum of TG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.6411
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.25798
mantle zone of r11Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.03068
hippocampus (hippocampal formation)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.53542
STAT3	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE158632_3_v_1_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE230573_1_v_0_dcaf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM12872_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE222758_0_v_4_clofazimine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_10917_KO_Ghr_SRP269490	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.10745
GSE201309_5_v_7_matrine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Shwachman-Diamond syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.225
Brain Lower Grade Glioma_LGG_TCGA-DU-A76L-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_2157_KO_Tnfaip3_SRP126279	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6396
POLR2AphosphoS2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEAD4_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPB_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE180200,GSE180201_3_v_9_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Subparaventricular zone	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.57096
GSE149903_0_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-A4C6-01A-11R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE174498,GSE174500_2_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
ATF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9746818-jciinsight-7-152886-s077.pdf-18-ARID5A_ARID5A	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_15966_KO_Tbet_SRP063567	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-13.6797
Phospholamban complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.742
H3K4me2_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_brain microvascular endothelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RAD21_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE231720,GSE231724_2_v_1_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsolateral prefrontal cortex_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09265
GSE140997_4_v_8_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
intermediate portion of DFC (area 9/46)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.916736
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.37943
CTCF_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE131425_2_v_0_arg2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ChIP_ESRRB_18555785	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2GO-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-15b	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
RAD21_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE101527_3_v_2_smad4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SmoothMuscle	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.31259
inner CP in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.23716
Ectorhinal area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.18047
GSE111102,GSE111105_3_v_7_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE233679_14_v_13_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-7857-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE121246_1_v_0_stat5b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MCC13	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Adrenocortical carcinoma_ACC_TCGA-PK-A5H8-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAL1_erythroblast_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147626_3_v_0_glutathione_human	RummaGEO Drug Perturbation Signatures	1.0	null
GABPA	ENCODE Transcription Factor Targets	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3445-01A-02R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE168076,GSE168080_1_v_0_batf_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
KARPAS-1106P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.07348
Anterior olfactory nucleus, dorsal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.03273
Perturb_6372_KD_COP1_SRP073333	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
AE-13-CX28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.578169
Perturb_8930_KD_ELL_SRP275788	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE175787_13_v_9_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
Lung adenocarcinoma_LUAD_TCGA-38-4632-01A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_epithelial cell of proximal tubule_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE173911,GSE173917_0_v_1_morc3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
STAT1	ENCODE Transcription Factor Targets	1.0	null
GSE253795_1_v_0_alkbh5_human	RummaGEO Gene Perturbation Signatures	1.0	null
ARID3A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cellular_component	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040586
H3K4me3_fibroblast of mammary gland_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of pedal digit skin_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT3_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_epithelial cell of esophagus_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE226770_1_v_0_atrx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Intestine	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K4me1_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MBD4	ENCODE Transcription Factor Targets	1.0	null
hsa-let-7a	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
NCIH1105	CCLE Cell Line Gene CNV Profiles	-1.0	-1.528
CTCF_WERI-Rb-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC3702285-cddis2013211x6.pdf-101-ZNF433_ZNF433	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2AphosphoS5_Panc1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_11915_KO_Rankl_SRP190820	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	8.57796
GSE215351,GSE215794_1_v_3_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KMS-21BM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.21715
CTCF_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETS2_KD_GSE62168_259_mouse_mouse trophoblast stem cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Muscle-mesenchymal stem cell	Tabula Sapiens Gene-Cell Associations	1.0	10.1369
cerebellar cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09356
hsa-miR-497	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
HDAC6	ENCODE Transcription Factor Targets	1.0	null
orbital frontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.73932
KP-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.867014
Liver Diseases	CTD Gene-Disease Associations	1.0	1.26452
GSE44157,GSE44163_3_v_0_nr6a1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.08429
GSE151412_2_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE220520_5_v_7_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
paclitaxel_homo sapiens_gpl570_gse19136	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
osteoblasts	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.23083
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A97P-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTBP2_H1-hESC_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
Ulcerative colitis	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
POLR2A_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE120415,GSE120447_0_v_1_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_foreskin fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE138938_1_v_4_foxp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE175787_4_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE175787_4_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE147876,GSE147877_4_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
periventricular stratum of PO1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08106
H3K4me3_CH12.LX_mm9_5	ENCODE Histone Modification Site Profiles	1.0	null
GSE129244_0_v_1_lmo2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Ovarian surface epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.715
HCC89	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.21693
Perturb_5817_OE|KO_Erg|Gata2_SRP239807	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
496100340_TCx_possible Alzheimer's disease_no TBI_100+_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.84726
ZNF410	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.6883
primary auditory cortex (core)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.964897
ND-39-PO34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211344
CTCF_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OCI-AML5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.54261
M-1	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	2.09859
Ezh2_Deficiency_GDS4309_364_mouse_Hearts	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GATA1_G1E-ER4_mm9_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EBF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_4825_KD_Supt6_SRP116356	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.54933
KA-29-AB08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.02279
PIAS3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.50087
ZNF337	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61671
CTCF_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE120612_7_v_3_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE178113,GSE178116_0_v_1_atrx_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RORC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.3495
GSE168604,GSE183859_1_v_0_selumetinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE135030_8_v_5_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
BA-84-WN26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.290463
GSE220520_3_v_0_ethanol_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE128634,GSE128636_1_v_3_foxo1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
RAD21_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-98-A53D-01A-32R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EGR1	ENCODE Transcription Factor Targets	1.0	null
PML	ENCODE Transcription Factor Targets	1.0	null
CTCF_BJ_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE190235_3_v_2_foxo3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE95077_5_v_4_amiloride_human	RummaGEO Drug Perturbation Signatures	1.0	null
eGFP-JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE44461_1_v_0_tcf21_human	RummaGEO Gene Perturbation Signatures	1.0	null
EP300_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
orbital frontal cortex_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.63892
NCIH1648	CCLE Cell Line Gene CNV Profiles	1.0	1.46292
KLF4-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
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	1.21659
GSE66014_0_v_1_perhexiline_human	RummaGEO Drug Perturbation Signatures	1.0	null
SR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.05427
GSE215086_5_v_6_batf_human	RummaGEO Gene Perturbation Signatures	1.0	null
PFEIFFER	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24778
TBP_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JE-72-KV75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.215714
NCIH1836	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34113
GSE128076_2_v_0_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE223008_0_v_3_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCIH1963	CCLE Cell Line Gene CNV Profiles	-1.0	-2.45263
Oligospermia	CTD Gene-Disease Associations	1.0	1.13929
HDAC2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1623	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.970318
adrenalgland	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.868511
ANKRD13A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02486
H3K27ac_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PITX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.304
GSE206729_5_v_1_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE158458_2_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	1.0	null
BHLHE40_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89729_0_v_1_ppard_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE101537_1_v_3_neurog3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ATF2	ENCODE Transcription Factor Targets	1.0	null
SIN3A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BACH1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE169571_0_v_1_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE196699_7_v_3_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-D3-A2JN-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CHD7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-S9-A6U0-01A-12R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_MEL cell line_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of skin of abdomen_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5467-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-VM-A8C9-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
inferolateral temporal cortex (area TEv, area 20)_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.938439
CTCF_mammary epithelial cell_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9288051-13046_2022_2428_MOESM12_ESM.xlsx-NB4-genes_bound_by_LYL1_at_its_promoter_regions_in_AML_cell_line_NB4_LYL1	Rummagene Transcription Factor Associations 2026	1.0	null
RAD21_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-44-3398-01A-01R-1107-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_12547_KO_Shank2_SRP309197	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.75386
Cholangiocarcinoma in primary sclerosing cholangitis	GWAS Catalog SNP-Phenotype Associations 2025	1.0	0.6
layer 6 of RSC	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12306
RC-K8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.69088
macrocytic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.10216
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE226249_2_v_4_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
HC-01-FD24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.330603
GSE188870,GSE188871_1_v_3_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE101527_0_v_1_smad4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142210_9_v_10_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCC202	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.23469
CTCF_MCF-7_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OPM1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.44744
mantle zone of TSPaA	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.39521
COLO668	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37343
nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Perturb_6523_KD_YTHDF2_SRP239270	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.40798
E2F6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lobules IV-V	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.10057
CTCF_WERI-Rb-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KMS34	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81568
OAW42	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.12207
outer portion of lateral ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.95224
POLR2A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE106661,GSE106665_2_v_3_arid1a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Prostate adenocarcinoma_PRAD_TCGA-X4-A8KQ-01A-12R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC12685885-Table1.xlsx-Table_S9-Du_PanCancer_SOX6_TrsFib_SOX6	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
salivary gland	HPA Tissue Gene Expression Profiles	-1.0	-1.20119
VZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.38107
H3K9ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K9ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Thyroid	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.08077
KON	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE180185_9_v_8_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_WI38_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4703-01A-01R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Declive (VI), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.375
PMC12482102-10020_2025_1363_MOESM7_ESM.xlsx-CASC19_KD_DEG-SYMBOL_AR	Rummagene Transcription Factor Associations 2026	1.0	null
OVCAR433	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24262
GSE62843,GSE64371_2_v_5_furan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
TBP	ENCODE Transcription Factor Targets	1.0	null
CAMA-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43949
H3ac_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE247764_3_v_2_nell2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
HM7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.8661
GSE89018_11_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
inferolateral temporal cortex (area TEv, area 20)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.39471
CF-91-JY05_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.245678
Perturb_5861_KD_H3f3a_SRP133189	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.176
amygdaloid complex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.28832
H3K4me3_GM12865_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SARS-BatSRBD_48Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.77422
PBX1-22567123-OVCAR3-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.865412
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-6938-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.02941
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A6GZ-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EZH2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6420765-12864_2019_5550_MOESM4_ESM.xlsx-R_D4_vs_D9-gene_id_x_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
r9 part of spinal trigeminal nucleus, interpolar part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28929
7537_RPS7_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.30775
7468_RPL37_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.38077
GSE242199_9_v_3_ntrk2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Prenatal Exposure Delayed Effects	CTD Gene-Disease Associations	1.0	1.67783
GSE224742_0_v_1_slc1a5_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-SRF_SRF	Rummagene Transcription Factor Associations 2026	1.0	null
Lateral visual area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.55579
GATA1_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.4387
central nucleus of inferior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.86905
GSE184902_4_v_0_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE160817_7_v_9_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE152441,GSE152442_6_v_2_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Sarcoma_SARC_TCGA-DX-A2J0-01A-11R-A21T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
parvocellular part of the r9LRt	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.99923
AC-92-HS43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.227022
TAF7	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-4646-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.32519
olfactory part of entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.924765
GSE229468,GSE229471_0_v_3_znf587_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE206516,GSE206518_6_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
SUZ12-20075857-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HS 675.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.973074
496100622_HIP_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.42597
GSE188884,GSE189078_2_v_3_ebf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_cardiac mesoderm_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE136894_2_v_3_psen1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_14157_KD_RCOR1_SRP279638	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	11.9333
POLR2AphosphoS5_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
isthmic portion of paranigral nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.03963
Head and Neck squamous cell carcinoma_HNSC_TCGA-IQ-A61O-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AD-34-TG29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.404226
GATA3	JASPAR Predicted Transcription Factor Targets	1.0	null
Anterolateral visual area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.14933
SCRT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7036
Retrosplenial area, dorsal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.30213
CTCF_GM12865_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.66197
PMC10037107-JEM_20221755_TableS6.docx-0-IL4-p_D419G-STAT6_targets_in_Jurkats_3_STAT6	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_13_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SW 948	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.06728
GSE132369,GSE132371_3_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-85-A4QQ-01A-41R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.82717
POLR2AphosphoS5_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HB-06-WU12_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.17509
GSE145639_7_v_4_adar_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H2AFZ_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14528_KO_Gata4_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.71497
H3K4me3_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TCEA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0778
Brain Lower Grade Glioma_LGG_TCGA-DU-6402-01A-11R-1708-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PcPV part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.10057
Retrosplenial area, dorsal part, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28372
HEC50B	CCLE Cell Line Gene CNV Profiles	1.0	2.10957
EP300_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE123689_1_v_0_cbx8_human	RummaGEO Gene Perturbation Signatures	1.0	null
Pure red-cell aplasia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.361
H3K4me3_astrocyte of the cerebellum_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM12864_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE179974_3_v_0_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
7312_RIOK2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.09231
Temporal association areas	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.7387
A-2780 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.728
8744_TBRG4_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.05515
KG1C	CCLE Cell Line Gene Expression Profiles	1.0	2.11504
PMC6167382-41467_2018_6258_MOESM4_ESM.xlsx-TEAD-associated_GSC-Specific_UP-Nearest_Ensembl_GSC	Rummagene Transcription Factor Associations 2026	1.0	null
GSE227592_13_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
H2AFZ_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE235516_0_v_1_zdhhc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE77178_2_v_3_ccnd1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE128333_4_v_5_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
E2F6_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193249_0_v_1_gpx8_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE190316,GSE190324_1_v_11_rbm4_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27ac_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TIA1_KO_GSE54418_261_mouse_midbrain	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
r10 part of the trigeminal column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32798
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.02082
rostral paraventricular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.09592
outer CP in ventrolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.17107
H3K4me3_fibroblast of gingiva_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GATA1	ChEA Transcription Factor Targets	1.0	null
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_foreskin fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
VMRCLCD	DepMap CRISPR Gene Dependency	1.0	3.07089
SEC61G	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.31311
SARS-CoV_24Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.09149
NB17	DepMap CRISPR Gene Dependency	1.0	2.99624
SW 1417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.35224
H3K4me3_cardiac mesoderm_hg19_8	ENCODE Histone Modification Site Profiles	1.0	null
MAX_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4287	TargetScan Predicted Conserved microRNA Targets	1.0	0.107229
anteroventral periventricular preoptic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.2384
17875932-TableS4	GeneSigDB Published Gene Signatures	1.0	null
ELK1	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-15a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.0155
1483_CENPJ_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.03147
GSE236262_0_v_3_trim28_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC11991920-41556_2025_1639_MOESM10_ESM.xlsx-DEGs_MI_4-oxo_vs_MI_Ctrl_HSPCs-Gene_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
TRUB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.13082
BC-54-ON71_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212762
CP in caudal hippocampus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.897174
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CW-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.865087
GSE174406_2_v_0_lin28b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
protein binding	GO Molecular Function Annotations 2015	1.0	null
EGFR_drugactivation_20_GDS2146	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.7939
NCAPH	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.42911
Primary somatosensory area, barrel field, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.22018
RFX5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
bone marrow cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.274732
pancreas	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
superficial stratum of m1AD	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.17224
SETDB1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary auditory cortex (core)_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.19366
7516_RPS27A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	2.20459
GSE135030_8_v_2_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
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	2.1339
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A9FW-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE81803,GSE81912_2_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-490-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.714812
E2F3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.6403
RCL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.96294
PMC7029036-41598_2020_59469_MOESM2_ESM.xlsx-NR4A1_Targetome-Genes_NR4A1	Rummagene Transcription Factor Associations 2026	1.0	null
17683608-TableS5	GeneSigDB Published Gene Signatures	1.0	null
medial superior olive	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.35189
CORL311	CCLE Cell Line Gene CNV Profiles	-1.0	-1.39046
CTCF_skin fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE240030,GSE252532_0_v_2_atrx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE184210_0_v_2_glucagon_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_H7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Central linear nucleus raphe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01011
GSE152441,GSE152442_0_v_2_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE183327,GSE183328_1_v_0_ddit3_human	RummaGEO Gene Perturbation Signatures	1.0	null
RFX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.047
hsa-miR-4667-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
Perturb_12086_OE_Esr1_SRP050547	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.8649
cisplatin_homo sapiens_gpl570_gds3910	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
LCK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08518
POLR2A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC364	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30778
GSE140322_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BV173 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.55
ESRRB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.40825
TBP_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE200099_3_v_0_honokiol_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE181003_3_v_2_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_brain microvascular endothelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_brain microvascular endothelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-HZ-7925-01A-11R-2156-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hematopoietic stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.444499
GSE188570,GSE188571_3_v_1_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Foxf1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.1672
GSE125011_0_v_2_cd83_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE171269_1_v_3_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
intracellular part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04103
H2AFZ_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZC3H11A	ENCODE Transcription Factor Targets	1.0	null
valproic acid_homo sapiens_gpl6883_gse26940	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE196699_2_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE192663_3_v_5_acly_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-34-5241-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1171	CCLE Cell Line Gene CNV Profiles	1.0	1.61974
HMGN3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-1913	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
sirolimus_mus musculus_gpl1261_gse21755	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
POLR2AphosphoS5_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HI-7169-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
COR-L279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65619
retromammillary area, lateral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.31283
EZH2_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-3_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
MEF2A	JASPAR Predicted Transcription Factor Targets	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EK-A2R8-01A-21R-A18M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE202434,GSE202438_2_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE174383_1_v_5_ly6d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE180200,GSE180201_3_v_0_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
colorectum	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Retrosplenial area, dorsal part, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.26341
outer CP in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.883872
RFX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.4561
POLR1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11528
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.268
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.11
PMC7532671-thnov10p10957s2.xlsx-Table_S6A-Table_S6A_Differentially_expressed_genes_DEGs_in_DDX5_KD_versus_WT_cells_AR	Rummagene Transcription Factor Associations 2026	1.0	null
KPNYN	DepMap CRISPR Gene Dependency	1.0	2.54825
GSE114992,GSE114993_8_v_2_irf5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FOXO1::FLI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.2368
GSE165579_0_v_1_opa1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MAX_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETS1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NUGC-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.07609
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81182
TAF1	ENCODE Transcription Factor Targets	1.0	null
8431_SRSF1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.17833
Foxl2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	25.7827
GSE232631_0_v_1_brca2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZNF675	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	37.7309
GSE141328_3_v_2_rock2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_12583_KO_EED_SRP379876	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.46669
mantle zone of Mam	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.35769
Cytoplasmic dynein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.855
PMC6744561-41467_2019_12125_MOESM8_ESM.xlsx-SEs_in_MCF10DCIS-TCF7_cells-Enhancer_to_gene_TCF7	Rummagene Transcription Factor Associations 2026	1.0	null
AC-44-UR36_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.405624
H3K4me3_CD14-positive monocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE228181_0_v_1_idh1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsolateral SC part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.37952
ACAP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.19394
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_6_MRC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
r8 part of nucleus of Roller	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.65254
Perturb_15_KO_Pbx1/Pbx2_ERP125157	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE190534,GSE190536_0_v_2_cyclophosphamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MV-4-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.82547
Lateral amygdalar nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.51042
GSE199092_3_v_0_ddx5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE92457_9_v_12_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
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	0.83654
mRNA_DLX3_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE48812_0_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
triangular septal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.03333
intermediate isthmic part of the dorsal raphe nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.08654
AR-19668381-PC3-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
JUN_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE135350_3_v_5_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE164135,GSE164137_0_v_1_fbxw7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
mammillary body, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.83886
H4K20me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K4me3_Caco-2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_1526_KO_Dnttip1_SRP056432	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.49298
GTF3C4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.50387
PMC5927328-NIHMS77085-supplement-Table_S4.xlsx-Table_S4A_LPS_induced_genes_GO-Unnamed_2_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
VIM	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45316
CTCF_H1-hESC_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mediodorsal nucleus of thalamus_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.867222
RPSA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.89954
periventricular mantle of isBM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12819
Colorectum	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
EP300	ENCODE Transcription Factor Targets	1.0	null
2119_DDX3X_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.05508
TAL1_G1E-ER4_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW 1573	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.01528
Lung adenocarcinoma_LUAD_TCGA-44-3396-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE157296,GSE157298_4_v_2_kbtbd4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE160017,GSE160022_1_v_0_trem2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SPI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreas	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K4me1_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE210580_3_v_2_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_6704_KD_LPA2_SRP057199	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.678
ZNF728	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07693
SHANK3_KD_GDS4759_338_mouse_E16 primary cortical neuron cultures	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE218580_1_v_4_fentanyl_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
HOXB4-20404135-EML-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
TE14	CCLE Cell Line Gene CNV Profiles	-1.0	-1.39022
PMC12482102-10020_2025_1363_MOESM7_ESM.xlsx-CASC19_KD_DEG-ENSEMBLE_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_C91-PL_LPS_vs_DC_Jurkat-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
outer CP in rostral cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.51233
GSE232631_4_v_1_brca2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE117730,GSE117732_0_v_2_apobec2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE215351,GSE215794_2_v_3_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE221577_2_v_5_pik3r1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE202434,GSE202438_3_v_11_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
intermediate stratum of r9Ve	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28305
GSE95077_5_v_2_amiloride_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC6683136-41598_2019_47363_MOESM4_ESM.xlsx-GENE_SET-Positive_correlation_of_ZEB1_and_other_genes_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
dorsomedial part of VMH	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.10309
HOXB4	ChEA Transcription Factor Targets	1.0	null
YY1	ENCODE Transcription Factor Targets	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4763-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BD-96-HO33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.590995
arcuate nucleus of medulla, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.24519
GSE196699_4_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CA-72-JV60_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.385261
glucose metabolism disease	GWASdb SNP-Disease Associations	1.0	0.253815
Perturb_14_Mut_Msgn1_ERP125157	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
H3K4me3_fibroblast of pulmonary artery_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE175787_5_v_9_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
ACCMESO1	CCLE Cell Line Gene CNV Profiles	1.0	1.57478
U87MG	CCLE Cell Line Gene Expression Profiles	1.0	1.6724
AR-27270436-VCAP-HUMAN-PROSTATE-CARCINOMA	ChEA Transcription Factor Targets 2022	1.0	null
Skin-mast cell	Tabula Sapiens Gene-Cell Associations	1.0	0.0607479
FF-86-NH56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.267711
H3K4me3_HepG2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
viscus	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
CDX2-20551321-CACO-2-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
TEAD4_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4700-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
GSE152441,GSE152442_6_v_3_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MYC_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
KDM5B	ENCODE Transcription Factor Targets	1.0	null
AF-99-HA02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.40816
H3K4me3_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
KMRC2	CCLE Cell Line Gene CNV Profiles	1.0	1.44855
7441_RPL17_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	2.10348
HA-E2F1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PDHX	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18592
H2AFZ_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7479515-mmc4.xlsx-ST-RELA-variable-Unnamed_6_RELA	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H1838	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.01703
OVCAR-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.50917
spleen	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.37609
GSE216413_1_v_0_gata3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33242
CTCF_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
immune system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.058548
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-6945-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27me3_cardiac mesoderm_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PR, GR	MotifMap Predicted Transcription Factor Targets	1.0	null
hsa-miR-377	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
CDK18	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.39105
GSE165636_0_v_4_tofacitinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
FC-20-EQ58_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.520517
GSE211177,GSE211178_4_v_10_ets1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_Caco-2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE180200,GSE180201_15_v_11_qpctl_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BC-40-TU13_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.536248
GSE120612_6_v_2_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Culmen	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09803
GSE161846,GSE161849_3_v_0_smarca4_human	RummaGEO Gene Perturbation Signatures	1.0	null
EGR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.939505
CTCF_fibroblast of pulmonary artery_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE140092_0_v_1_socs3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE198380_0_v_1_phgdh_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE134896_0_v_7_progesterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC9288051-13046_2022_2428_MOESM4_ESM.xlsx-Super_enhancers_in_AML3-CLOSEST_GENE_RUNX2	Rummagene Transcription Factor Associations 2026	1.0	null
PMC10981674-42003_2024_6055_MOESM7_ESM.pdf-1-SOX4_SOX4	Rummagene Transcription Factor Associations 2026	1.0	null
dentate gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.47311
GSE203158_1_v_15_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SIN3A	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC60	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.83391
Perturb_3567_KD_CA2_SRP336886	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	17.1656
H3K27ac_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
17699775-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-DA-A1I8-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A195-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MXI1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_5_v_13_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Lung adenocarcinoma_LUAD_TCGA-50-5066-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE176008_7_v_2_azacitidine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TAF7_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142210_11_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
2105_DDX18_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.51487
PMC11991920-41556_2025_1639_MOESM10_ESM.xlsx-DEGs_MI_at-RA_vs_MI_Ctrl_HSPCs-Gene_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
outer CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.915639
GSE171175,GSE171181_1_v_2_e7107_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE89018_12_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GAK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.38578
H3K4me3_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hmc1	HPA Cell Line Gene Expression Profiles	1.0	1.80408
GSE203329_2_v_3_mettl5_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_BE2C_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE206729_3_v_1_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
rhombomere 11	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.50124
KP4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1394
H3K4me3_fibroblast of the aortic adventitia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
blast cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.119209
7462_RPL35A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.0096
hsa-miR-3194-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
CTCF_GM12874_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_7119_KO_Prkce_SRP049245	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.55206
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-HM-A4S6-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
lateral dorsal nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.20594
VZ in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.860899
GSE182179_5_v_4_kdsr_human	RummaGEO Gene Perturbation Signatures	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-7049-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-548h	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
NAF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22726
intermediate stratum of LAP	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.18366
IA-03-BO30_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.269566
GSE80098,GSE80366_0_v_8_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
whole body	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
SIN3A_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE220520_5_v_2_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
7463_RPL35_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.83119
Perturb_13245_OE_Med24_SRP201000	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
hsa-miR-324-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
Skin Cutaneous Melanoma_SKCM_TCGA-D9-A6EG-06A-12R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
superficial stratum of r10BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.03305
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-7_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_6476_KO_SETD6_SRP341895	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	15.1606
Perturb_1759_KO_Tet2_SRP250516	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.59786
GSE112860_5_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE202434,GSE202438_4_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
outer SZ in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.10996
striatum_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.48943
striatum_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.00179
GSE256181_1_v_3_etv2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
YKG1	CCLE Cell Line Gene Expression Profiles	1.0	1.51535
DEL	CCLE Cell Line Gene Expression Profiles	1.0	1.62243
CTCF_HepG2_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2549_EIF3E_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.43018
CTCF_Caco-2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE161846,GSE161849_1_v_5_smarca4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
lmo4_17452977_mcf7_lof_human_gpl570_gds2789	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.154067
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31563
r4 part of descending trigeminal sensory nucleus, oral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.06499
posteroventral (inferior) parietal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.90115
GSE152432_3_v_2_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HIKESHI	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27628
GSE149903_3_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RPL30	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.38296
GSE244710_1_v_2_srsf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE174498,GSE174500_5_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE180321_0_v_1_imperatorin_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE200673,GSE200691_1_v_3_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.919348
superficial stratum of r10Ve	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.02769
GSE142684_0_v_5_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135705_5_v_3_corticosterone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_A549_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
mantle zone of the Fc	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.10349
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_MCF-7_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DD-74-PJ26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.278653
GSE164757,GSE164759_1_v_2_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
r10 alar plate	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.14966
H3K27me3_H7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_epithelial cell of esophagus_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A4NG-01A-11R-A27V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DG-A2KL-01A-11R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E16_vs_D3_1784_AR-DEGS-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
SNU410	CCLE Cell Line Gene CNV Profiles	1.0	2.08058
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Change_in_both_CSDE1_KD_hESCs-hgnc_symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE133516_5_v_6_kat7_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Folium-tuber vermis (VII)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.8197
CTCF_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168602,GSE168604_2_v_6_selumetinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05116
Perturb_5894_KD_CBX5_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.07769
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
GSE96777,GSE96778_1_v_0_zbtb4_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE220520_3_v_4_ethanol_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_812_OE_TRIB3_SRP262247	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.42907
Gastrointestinal tract	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE149903_4_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PHF8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-1273e	TargetScan Predicted Conserved microRNA Targets	1.0	0.541706
Kidney renal clear cell carcinoma_KIRC_TCGA-EU-5905-01A-11R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_B cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
SET-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.46886
MZ in rostral midinferior temporal cortex (area 36)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.45286
7500_RPS12_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.25076
anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.243295
1301_CCDC86_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.06925
GSE142210_11_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
skeletal muscle	HPA Tissue Gene Expression Profiles	-1.0	-1.20119
KASUMI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.25245
CTCF_GM12874_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_926_OE_Scnn1b_SRP272854	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.49088
MECOM	ChEA Transcription Factor Targets	1.0	null
GSE226249_0_v_8_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAX_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
GSE57871_5_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Caudoputamen	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12691
SNU349	CCLE Cell Line Gene Expression Profiles	1.0	2.02349
dorsolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.37717
H3K4me1_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE91015_0_v_1_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
JUN::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2188
lateral amygdaloid nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.51503
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	0.887895
dorsolateral prefrontal cortex_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.02488
Perturb_1173_KD_RUNX1_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.49292
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.37381
GSE209938_0_v_1_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
stratum radiatum of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.42358
Acute Myeloid Leukemia_LAML_TCGA-AB-2921-03A-01T-0740-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_566_KD_GATA1_SRP158500	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.23608
SMC3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10153265-media-3.xlsx-BENPORATH_SOX2_TARGETS_v2023_1-STANDARD_NAME_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
Crus II, left, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.03863
GSE155162,GSE155169_1_v_3_buparlisib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_1_TRC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3428-01A-02R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_9086_KO_YAP_SRP297717	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
RAD21_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVCAR-5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.856228
CD-47-YL43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.382741
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NRF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBL1XR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE235390_4_v_0_lurbinectedin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE48812_2_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE183413_1_v_2_ash1l_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.059
496100338_HIP_probable Alzheimer's disease_no TBI_79_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.01775
gallbladder_5c	HPA Tissue Sample Gene Expression Profiles	1.0	0.927356
GCT	CCLE Cell Line Gene CNV Profiles	1.0	1.54898
dorsolateral prefrontal cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.934471
20937356-TableS2	GeneSigDB Published Gene Signatures	1.0	null
SuperiorCervicalGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.948685
ZBTB7A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142210_9_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC4149371-pone.0105180.s010.xls-OCT4-GENE_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
JUN_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-S7-A7WQ-01A-12R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE223008_6_v_12_calhm6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
u87	HPA Cell Line Gene Expression Profiles	1.0	1.77142
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.953691
PMC10842785-NIHMS1948219-supplement-3.xlsx-GATA2_sense_vs_antisense-Gene_GATA2	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_spleen_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CCK81	DepMap CRISPR Gene Dependency	1.0	2.85533
PMC10592471-NIHMS1912771-supplement-4.xlsx-D-HEp3_UP_NR2F1_ind_UP-NR2F1_Ind_UP_NR2F1	Rummagene Transcription Factor Associations 2026	1.0	null
ZBTB7A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
YY1_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE87412,GSE92423_0_v_1_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE201309_4_v_7_matrine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_retinal pigment epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC8363470-mmc3.xlsx-FigS4-All_MIS-C_vs_KD_CoV-2--Monocytes_cDCs_pDCs_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Neoplasms, Experimental	CTD Gene-Disease Associations	1.0	1.17827
Perturb_10185_KD_ARNT1/3_SRP337185	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.67234
H3K4me3_fibroblast of pedal digit skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A3WW-01A-22R-A23N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-7061-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-KT-A7W1-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-4536	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
KMS-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.44631
GSE195568_3_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_fibroblast of lung_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_5365_KO_Mettl14_SRP297324	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.63434
PMC4149371-pone.0105180.s010.xls-NANOG-GENE_NANOG	Rummagene Transcription Factor Associations 2026	1.0	null
periventricular stratum of JcPV	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.20034
GSE182680,GSE182683_7_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE189772,GSE189773_3_v_2_fbxo11_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_GM12875_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE153189_2_v_0_stat1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135030_11_v_2_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE135030_8_v_0_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
SW 1417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1394
FE-10-KQ78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.311395
integral component of membrane	GO Cellular Component Annotations 2015	1.0	null
OCUM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.07503
GSE227592_8_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
NR2F2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EA-A3HT-01A-61R-A21T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE150669_2_v_1_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE164483_2_v_0_venetoclax_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me2_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_cardiac mesoderm_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Micronucleus	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.701
blood	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057903
BD-49-MD69_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.310587
H3K79me2_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MCF10DCIS.COM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00884
H3K4me1_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
2544_EIF3A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00839
U118MG	DepMap CRISPR Gene Dependency	1.0	2.31036
CTCF_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE215086_8_v_6_batf_human	RummaGEO Gene Perturbation Signatures	1.0	null
induseum griseum	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28151
UBTF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7514_RPS25_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.01872
GSE195582_0_v_1_pim1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM19238_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SAP30	ENCODE Transcription Factor Targets	1.0	null
GSE136894_1_v_0_psen1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
whole body	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
BD-11-DV28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.229944
H3K4me1_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DMS 454	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08837
GSE211989_0_v_1_nlrc3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
7493_RPP40_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.22469
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.01703
GSE151494_1_v_9_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE92614_1_v_0_pten_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TBP_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_9615_KO_Mll1_SRP255888	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	4.37467
SIN3A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
E2F6_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8208823-mmc2.xlsx-CDX2-KO_epithelial_DEG-feature_CDX2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE123887,GSE123888_2_v_1_hpgd_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE181003_3_v_0_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZKSCAN1	ENCODE Transcription Factor Targets	1.0	null
Perturb_16435_KD_APP_SRP187586	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-10.6894
SK-MEL-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.51145
C170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.13639
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.22395
posteroventral (inferior) parietal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.8495
H3K4me3_cardiac mesoderm_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
RCC4	CCLE Cell Line Gene CNV Profiles	1.0	1.68186
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RAD21	ENCODE Transcription Factor Targets	1.0	null
DMS79	CCLE Cell Line Gene CNV Profiles	-1.0	-1.75396
H3K9ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TAL1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147210_2_v_5_kmt2d_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ezh2_22267199_heart_lof_mouse_gpl6246_gds4309	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	1.09266
Sarcoma_SARC_TCGA-DX-A8BU-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CFAP97	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.09615
GSE163240_2_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Gfi1b	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.7746
GSE182680,GSE182683_10_v_13_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
striatum_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.855318
Perturb_9240_KD|OD_ENL|ENL_SRP074134	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.61501
GSE211128_4_v_6_angptl4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Rhox11	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.2875
PMC9288051-13046_2022_2428_MOESM4_ESM.xlsx-Super_enhancers_in_AML2-CLOSEST_GENE_RUNX3	Rummagene Transcription Factor Associations 2026	1.0	null
orbital frontal cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.877585
Prostate adenocarcinoma_PRAD_TCGA-EJ-5519-01A-01R-1580-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-548d-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
GSE210580_3_v_11_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BB-62-MS83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.295137
Lung adenocarcinoma_LUAD_TCGA-50-8459-01A-11R-2326-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-GN-A4U9-06A-11R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.44306
G120	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.29155
MYBL2	ENCODE Transcription Factor Targets	1.0	null
MAST1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06253
H3K4me3_fibroblast of lung_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_16077_KO_p63_SRP249338	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-7.43036
X, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.09929
SPI1-22790984-ERYTHROLEUKEMIA-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
786O	DepMap CRISPR Gene Dependency	1.0	2.01385
POLR2AphosphoS5_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188870,GSE188871_0_v_2_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
7527_RPS5_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.75612
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58126
KMS-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.19282
superficial stratum of r5Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05172
GSE199899_1_v_0_diethylnitrosamine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_WI38_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TMEM47	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01668
MXI1	ENCODE Transcription Factor Targets	1.0	null
GSE225656_2_v_1_tsc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_HCT116_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AA-39-BD24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200612
hsa-miR-4684-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
GSE195568_2_v_10_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
lateral part of MM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.9291
GSE148692,GSE148695_1_v_0_satb2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-G6-A8L7-01A-11R-A37O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	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	-0.942676
7467_RPL37A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.23425
Prostate adenocarcinoma_PRAD_TCGA-HC-7752-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
frontal pole, left, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.64327
GSE146840,GSE146842_3_v_2_qrich1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of foreskin _hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
FOXM1	ENCODE Transcription Factor Targets	1.0	null
MYC	ENCODE Transcription Factor Targets	1.0	null
SUSA	DepMap CRISPR Gene Dependency	1.0	2.00809
FOSL1_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormality of the endocrine system	GWASdb SNP-Phenotype Associations	1.0	0.073914
Perturb_8980_KD_MEOX2_SRP358321	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.06943
GSE247764_5_v_2_nell2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE140200_2_v_3_trim59_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
EMP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.87587
PMC10800016-table_s5_20230913_ddad186.xlsx-FvsC_-_DUX4_I-Unnamed_1_DUX4	Rummagene Transcription Factor Associations 2026	1.0	null
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.948364
Head and Neck squamous cell carcinoma_HNSC_TCGA-IQ-A61E-01A-22R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.3291
GSE152432_1_v_2_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Cytosolic small ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.375
Lateral visual area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.75352
JB-75-NC66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.325053
POLR2A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RERFLCSQ1	DepMap CRISPR Gene Dependency	1.0	2.52401
8656_TAF1A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.29368
Anterior hypothalamic nucleus, anterior part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.48859
GSE72491_0_v_1_pcbp2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE247764_0_v_2_nell2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11699082-BLOODA_ADV-2023-012291-mmc1.xlsx-Sheet1-CD37_inv_corr_top100_GSE10846_CHOP_ABC_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
layer 5 of PCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.2423
Primary somatosensory area, lower limb, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.23452
DMS153	CCLE Cell Line Gene CNV Profiles	-1.0	-2.38155
hsa-miR-1252	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
Declive (VI)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.38015
GSE118794_2_v_4_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SOX2-21211035-LN229_GBM-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
3214_FTSJ3_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.41037
Penis_Foreskin_Fibroblast_Primary_Cells_skin01	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.02282
GSE89018_10_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC11833364-tcr-14-01-340-supplementary.pdf-32-TP63_TP63	Rummagene Transcription Factor Associations 2026	1.0	null
VZ in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.1097
dorsal paracommissural tectal nucleus, m1 part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.16971
hsa-miR-4753-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
H2AFZ_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
orbital frontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.981545
MAX_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.864208
Small ribosomal subunit	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.197
ZBTB7A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7438_RPL14_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.07989
TA-34-CK62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.657223
ventrolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.81632
Perturb_16484_KO_Ikk2_SRP131881	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.10196
HS 839.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.41627
Blood platelet disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.397
H3K4me3_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_8329_KD_FTO_SRP125734	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
cingulum bundle, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.20762
GSE217552_3_v_4_fisetin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE153341_2_v_0_atf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AR	ChEA Transcription Factor Targets	1.0	null
GSE77108_4_v_7_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE48812_3_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC5749161-supp_gad.305813.117_Supplemental_Table_S2.xlsx-CLOCK_DEG_database-Supplemental_Table_S2_Differentially_expressed_genes_database_and_gene_set_intersections_CLOCK	Rummagene Transcription Factor Associations 2026	1.0	null
HUVEC	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-0.992567
GSE228106_0_v_4_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_9816_KD_ARID5B_SRP103740	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.72782
GSE248045,GSE248046_0_v_5_runx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KMM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31563
PMC6420765-12864_2019_5550_MOESM5_ESM.xlsx-D4_vs_D9-FDR_0_05_logFC_2_RPKM_1_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
MYC_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE164508_1_v_0_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
7525_RPS3_P1	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.23466
4945_MED22_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.95333
ZNF384_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AB-33-EM56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.934089
PMC12186250-NIHMS2085662-supplement-3.xlsx-4111_TEAD4_peaks-Gene_Name_TEAD4	Rummagene Transcription Factor Associations 2026	1.0	null
RASA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.55799
GSE198794_0_v_3_usp18_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE214596,GSE214598_1_v_0_rosiglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_Duodenum Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE229344_1_v_0_cyb5r3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
7509_RPS19_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.16505
H3118	DepMap CRISPR Gene Dependency	1.0	2.77575
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-G8-6326-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-4620-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EJM	CCLE Cell Line Gene Expression Profiles	-1.0	-1.46935
Retrosplenial area, dorsal part, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.39611
intermediate stratum of RMa	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.30963
fusiform gyrus, right, bank of cos	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.05562
GSE88819_7_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TEAD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.7878
MOLM14	DepMap CRISPR Gene Dependency	1.0	2.29734
GSE118794_0_v_1_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-548c-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
CHCHD10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.36598
TOP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05668
Perturb_1135_KO_Ahr_ERP113014	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-15.3174
VZ in caudal subicular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.66658
GSE196699_7_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.89692
DEXI	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15024
MXI1_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14531_KO_Ptf1a_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
dexamethasone_homo sapiens_gpl6480_gds3946	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.21252
hsa-miR-195	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
OCI-AML3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.962569
H3K4me3_HCT116_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EK-A2RN-01A-12R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE112174_5_v_7_runx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mouse	GeneRIF Biological Term Annotations	1.0	null
RAD21_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-370	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
Temporal association areas, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.84803
GSE105173,GSE105175_1_v_0_dhx36_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10359315-41598_2023_37732_MOESM1_ESM.pdf-0-ZBTB16_ZBTB16	Rummagene Transcription Factor Associations 2026	1.0	null
hsa-miR-3675-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
RD-90-OY66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.11596
Posterolateral visual area, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.43493
lateral subdivision of area 9	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.24494
Prostate adenocarcinoma_PRAD_TCGA-EJ-A8FO-11A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Disorders of Sex Development	CTD Gene-Disease Associations	1.0	1.10596
CTCF_fibroblast of the aortic adventitia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
estradiol_homo sapiens_gpl570_gds3283	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE184902_3_v_1_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ATF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
anterior group of nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.826902
BC-80-FK74_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.22389
E2F6_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC11214527-mmc5.xlsx-POU5F1-gene_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
Bone inflammation disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
mediodorsal nucleus of thalamus_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.18205
TIA1_KO_GSE54418_263_mouse_spinal cord	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE127790_11_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AN3 CA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00884
Pheochromocytoma and Paraganglioma_PCPG_TCGA-WB-A821-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE171177,GSE171181_1_v_2_e7107_human	RummaGEO Drug Perturbation Signatures	1.0	null
hsa-miR-4658	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.0155
primary motor-sensory cortex (samples)_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.958195
external segment of globus pallidus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.22366
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A1M8-01A-21R-A13Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE101239_3_v_2_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
core part of the anterobasal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.43659
H3K27me3_cardiac mesoderm_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OPM2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.47524
GSE95688_7_v_5_glutathione_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-6937-01A-11R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6744561-41467_2019_12125_MOESM8_ESM.xlsx-SEs_gained_in_MCF10DCIS-TCF7_ce-closest_gene_TCF7	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_fibroblast of villous mesenchyme_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147876,GSE147877_4_v_8_enzalutamide_human	RummaGEO Drug 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	0.995242
PMC10561055-mmc3.xlsx-LPS_T2-hgnc_symbol_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
7526_RPS4X_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	2.27758
H4K20me1_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_1724_KO_Tet2_SRP353433	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE149903_5_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RARA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	50.5371
Lung adenocarcinoma_LUAD_TCGA-05-5423-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
choroid plexus of the fourth ventricle	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.03616
GATA1_G1E-ER4_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZBTB7A	ENCODE Transcription Factor Targets	1.0	null
BF-69-DN58_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.320045
CD56+_NKCells	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.833213
CTCF_A549_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-38-4627-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE135352_6_v_3_napabucasin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-4074-01A-01R-1436-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CREB1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAL1_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20R-01A-12R-A16R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE186483_2_v_0_lrrk2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Supplemental somatosensory area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.70406
GSE202434,GSE202438_8_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
dorsolateral part of Med	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0038
primary visual cortex (striate cortex, area V1/17)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.34902
GSE48812_3_v_5_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE148692,GSE148695_2_v_0_satb2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6122955-elife-33947-supp2.xlsx-NY8_v_NY15_DE_Bru-seq-HNF1A-regulated_genes_Bru-seq_after_shRNA_in_NY8_or_NY15_cells_-_related_to_Figure_7A_HNF1A	Rummagene Transcription Factor Associations 2026	1.0	null
CHLA90	DepMap CRISPR Gene Dependency	1.0	2.15743
GSE221742,GSE221743_1_v_2_sipa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.865412
H3K4me1_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A1EJ-01A-11R-A155-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_1004_OE_Bach2_SRP158472	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.64381
ZNF556	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.09529
CTCF_GM12875_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hematopoietic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055914
GSE171837_3_v_1_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27ac_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_lung_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
QB-42-MC63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.485818
anterior (rostral) cingulate (medial prefrontal) cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.21741
CTCF_HEK293_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC11979751-table_s1_trajectoryderivation_elad055.xlsx-Cluster_DE_Genes_Summary-Cluster_2_AP2_Up_GTF3A	Rummagene Transcription Factor Associations 2026	1.0	null
GABPA_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TIA1_KO_GSE54418_267_mouse_spinal cord	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE226983_2_v_0_ddx5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MNAT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.66163
Tegmental reticular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.02544
GSE169697,GSE169725_1_v_4_prrx1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Necrosis	CTD Gene-Disease Associations	1.0	1.37047
H3K27ac_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-423-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.828473
CHD2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-34-5928-01A-11R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC5894239-12864_2018_4591_MOESM9_ESM.xlsx-ST12_mir_downregulated-Gene_name_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
SETDB1	ChEA Transcription Factor Targets	1.0	null
NCIH1437	CCLE Cell Line Gene CNV Profiles	1.0	1.5608
magnocellular (medial) subparafascicular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00317
EP300_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-1825	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
H3K4me3_keratinocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SW 982	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.48661
MYC_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KMS-28PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.59471
PMC9288051-13046_2022_2428_MOESM4_ESM.xlsx-Super_enhancers_in_AML2-OVERLAP_GENES_RUNX3	Rummagene Transcription Factor Associations 2026	1.0	null
DB-54-GQ68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.277502
GSE132948,GSE132949_0_v_3_msi2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12160862-ijbsv21p3573s2.xlsx-Table_S12-Supplementary_Table_S12_Differentially_Expressed_Genes_in_fibroblast_grouped_by_SOX11_expression_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_9085_KO_YAP_SRP297717	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE126345_7_v_5_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_GM19193_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_Pancreatic Islets	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-DA-A1HY-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A3WB-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cardiac muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
inner CP in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.10401
GTF2F1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE217776,GSE217829_2_v_6_sgf29_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-TBP_TBP	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE199255,GSE199356_3_v_5_pds5a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HEPG2	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	0.995162
CTCF_GM12873_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT4	ChEA Transcription Factor Targets	1.0	null
Esophagus - Gastroesophageal Junction	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.964306
GSE121043_0_v_1_aldh1a1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MAZ	ENCODE Transcription Factor Targets	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.051028
SOX2-16153702-HESC-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3ac_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Chromosome Aberrations	CTD Gene-Disease Associations	1.0	1.09154
PML_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE226091,GSE226092_3_v_1_sall1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
outer CP in caudal cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.98008
GSE190316,GSE190324_10_v_9_rbm4_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE130715_1_v_0_budesonide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GB-94-XG34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.268771
EGR1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7459_RPL31_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.47952
H3K4me3_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
layer 4 of PaS	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.13591
8416_SRP68_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.0916
hsa-miR-4458	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
SG in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.0882
EGR1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Nucleus of the solitary tract, gelatinous part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.4779
GSE225982_2_v_0_ezetimibe_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE217552_3_v_2_fisetin_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC4595011-pgen.1005555.s001.xlsx-MITF_UP-regulated-Ensembl_gene_id_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
GSE122711_2_v_3_mpc1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
2550_EIF3F_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.05832
HDAC6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE133691_2_v_0_lgr5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE101239_3_v_0_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
r11 part of spinal trigeminal nucleus, caudal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.0298
Pontine gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05242
GSE186810,GSE186813_3_v_5_furin_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE123638,GSE123639_3_v_1_bortezomib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE242049_1_v_0_txndc5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE142684_3_v_5_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE148263_6_v_9_trim3_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE119345_2_v_4_bexarotene_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_K562_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-MT-A67F-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Gli1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.2493
mediodorsal nucleus of thalamus_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.38061
GSE48812_7_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE214842_0_v_1_atf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A3IQ-01A-31R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CHD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventrolateral prefrontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.21428
CTCF_A549_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_9243_KD_ENL_SRP074134	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.5347
GSE171837_3_v_2_bortezomib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
discussion	GeneRIF Biological Term Annotations	1.0	null
frontal pole, right, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.30378
GSE74251_2_v_3_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Heart	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.53217
frontal pole, right, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.25504
UACA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02472
GATA1_G1E-ER4_mm9_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7006-01A-11R-2027-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-3664-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
H6PD_KO_GDS3195_602_mouse_Skeletal muscle - Soleus	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE117042_0_v_3_tunicamycin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE213650_3_v_2_everolimus_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CHD2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE164874_5_v_3_prednisolone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC10861538-41467_2024_45669_MOESM7_ESM.xlsx-Sheet1-Supplementary_Data_4_DEGs_upon_KD_of_EVT_TFs_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Fat-mesenchymal stem cell	Tabula Sapiens Gene-Cell Associations	1.0	2.788
CTCF_pancreas_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_5549_KO_Wdr72_SRP353473	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.16449
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A464-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AB-84-PK04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.240118
H3K4me3_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A9FV-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ventrolateral prefrontal cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.836951
CAMA1	CCLE Cell Line Gene CNV Profiles	1.0	1.58075
hsa-miR-424	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
496100322_FWM_possible Alzheimer's disease_no TBI_100+_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.50517
Head and Neck squamous cell carcinoma_HNSC_TCGA-UF-A7JV-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-198	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
GSE100316_3_v_1_mtor_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SPI1	ENCODE Transcription Factor Targets	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-DV-5576-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE132948,GSE132949_2_v_3_msi2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
496100324_FWM_no dementia_TBI_79_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.41409
BCL11A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.3608
POLR2A_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TIA1_KO_GSE54418_265_mouse_midbrain	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.979019
frontal pole, left, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.05178
CTCF_fibroblast of skin of abdomen_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_16592_KO_Trp53/Brca1_SRP186281	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.0381
GSE148066,GSE157787_5_v_4_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135350_3_v_7_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE133505_5_v_4_myf6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE70883,GSE71179_0_v_1_pbx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE110268_2_v_3_foxd1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Superior colliculus, motor related, deep white layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.47536
MAFK_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EGFR_drugactivation_19_GDS2146	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.72775
NCI-H1703 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.923
alar part of terminal hypothalamus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.14607
H2AFZ_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary auditory cortex (core)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.857949
PC-87-OG75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.388644
JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-FJ-A871-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE174498,GSE174500_2_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
7503_RPS15A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.77482
PMC10981674-42003_2024_6055_MOESM1_ESM.pdf-41-SOX4_SOX4	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_5678_KO_Pgr_ERP140354	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
PMC9288051-13046_2022_2428_MOESM5_ESM.xlsx-Super_enhancers_in_T-ALL1-OVERLAP_GENES_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
SKNFI	DepMap CRISPR Gene Dependency	1.0	2.05903
GSE68155_3_v_2_gpr3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE107505_1_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC4782046-supp_30.5.508_TableS2.xlsx-TAL1_UTX-co-bound_genes-Table_S2_List_of_TAL1_UTX_co-bound_genes_in_Jurkat_cells_TAL1	Rummagene Transcription Factor Associations 2026	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-S9-A6UA-01A-12R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC11655728-12672_2024_1562_MOESM2_ESM.xlsx-Sheet1-Hs_ESC_SOX2_targets_Boyer_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.040855
NCI-H810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.92157
CA2 field, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.56335
TAF1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.49155
RUNX3	ENCODE Transcription Factor Targets	1.0	null
GSE218060_2_v_4_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
E2F6_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE254155_5_v_0_per2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
fertilizedegg	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.24038
GSE182680,GSE182683_7_v_9_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE120370_4_v_1_thrombin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
supramammillary nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.2944
Adrenocortical carcinoma_ACC_TCGA-OR-A5JX-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-98	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
pontine nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.72203
r9 part of nucleus of Roller	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.45172
GSE223008_9_v_1_calhm6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM06990_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89018_6_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
JUND_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MBD4_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	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	1.09913
GSE132369,GSE132371_2_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-5178-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE244518,GSE244520_1_v_0_dnmt3b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Sarcoma_SARC_TCGA-DX-A23Y-01A-11R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_bone marrow_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF384_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
anterior orbital gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.35218
GSE207514,GSE207515_2_v_3_acetylcysteine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
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
PNMA5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.10369
GSE202434,GSE202438_4_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
CCNT2	ENCODE Transcription Factor Targets	1.0	null
TAL1_megakaryocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_2196_KO_Tnfaip3_SRP103751	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GATA1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.994739
UBTF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreas-pancreatic stellate cell	Tabula Sapiens Gene-Cell Associations	1.0	0.582088
AC-71-YF45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.247539
FLI1::FOXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.7419
Perturb_16455_KO_CHUK_SRP229998	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
primary motor cortex (area M1, area 4)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.23743
496100458_FWM_no dementia_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.34769
POLR2AphosphoS5_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDA-MB-157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.27566
primary auditory cortex (core)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01376
Disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
posterior (caudal) superior temporal cortex (area 22c)_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.977659
OPM2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32714
GSE193993_5_v_6_sstr2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
BA-84-WN26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.212678
Crohn's disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-4891-01A-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
animal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
TNFRSF25	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.99461
NCI-H1355	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09241
H3K4me1_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
primary auditory cortex (core)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.54322
GSE183316,GSE183317_1_v_0_tet2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE189789_0_v_1_oridonin_human	RummaGEO Drug Perturbation Signatures	1.0	null
abnormality of metabolism/homeostasis	GWASdb SNP-Phenotype Associations	1.0	0.045669
GSE199204,GSE211619_4_v_0_glutamine_human	RummaGEO Drug Perturbation Signatures	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.924511
TAL1_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HBQ1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22736
frontal pole, right, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.01712
GSE125025_2_v_3_lyl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_3240_OE_IK6_SRP136156	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
H-1299	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.898
PML_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE236502_1_v_3_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE132948,GSE132949_2_v_5_msi2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
LS1034	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.6174
appendices_4b	HPA Tissue Sample Gene Expression Profiles	1.0	1.47581
blood coagulation disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.215314
hsa-miR-4500	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
GSE195513_0_v_3_cpeb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GATA2-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Perturb_15044_KD_PTBP1_SRP124244	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.422
GSE214212_3_v_1_chd6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF7L2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.0967
gata4_18812176_jejunum_tissue_lof_mouse_gpl1261_gds3486	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.031132
Lung squamous cell carcinoma_LUSC_TCGA-43-3920-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ChIP_KLF4_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
wt1_17088532_huvec_lof_human_gpl570_gds2010	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.294966
GSE184884_4_v_1_gps2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.920692
SETDB1	ENCODE Transcription Factor Targets	1.0	null
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.051161
GSE202434,GSE202438_9_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_endothelial cell of umbilical vein_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
HCC4011	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.829302
GSE122378_0_v_1_carmil3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC5325343-oncotarget-07-63003-s002.xlsx-Supplementary_Table_1-Supplementary_Table_1_Genes_upregulated_by_EWS-FLI1_in_the_Gordon_et_al_data_set_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
RAD21_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE88819_7_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF12_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.28976
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.099
PAX5_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE111385_2_v_3_tgfbr2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
LOUCY	CCLE Cell Line Gene Expression Profiles	1.0	1.44612
GSE102505_4_v_3_tunicamycin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE124471,GSE124488_1_v_0_lats1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE57871_6_v_2_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27ac_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_K562_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
EOL1	CCLE Cell Line Gene Expression Profiles	1.0	1.38239
KG1	CCLE Cell Line Gene CNV Profiles	-1.0	-3.19523
IRF1_K562_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
CTCF_keratinocyte_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Anterolateral visual area, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.42258
888	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.855941
STAT1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE137325_2_v_0_copanlisib_human	RummaGEO Drug Perturbation Signatures	1.0	null
NDC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.57459
GSE256181_2_v_3_etv2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE195559_8_v_5_notch1_human	RummaGEO Gene Perturbation Signatures	1.0	null
striatum_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.834764
GSE147210_3_v_4_kmt2d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE198165,GSE198166_7_v_4_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VMP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.21169
PMC7857731-elife-63093-supp1.xlsx-DEG_MITF-X6vsEV-SkMEL28-Unnamed_2_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_9238_KD_ENL_SRP074134	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.6908
central nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE184902_4_v_1_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC10981674-42003_2024_6055_MOESM1_ESM.pdf-26-GATA6_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_foreskin fibroblast_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7539_RPS9_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.06843
H3K4me3_skeletal muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE175787_4_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE186483_6_v_4_lrrk2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58126
CTCF_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC2866657-pone.0010547.s001.xls-ERG-high-GENES_UPREGULATED_IN_ERGhigh_ERG	Rummagene Transcription Factor Associations 2026	1.0	null
Anterolateral visual area, layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.73954
EBV-B cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.158
amygdaloid complex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.26887
Mesothelioma_MESO_TCGA-NQ-A57I-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE245134_2_v_3_atg5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE211177,GSE211178_0_v_1_ets1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BD-49-MD69_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.962572
ARID3A	ENCODE Transcription Factor Targets	1.0	null
HMY-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59807
Lung squamous cell carcinoma_LUSC_TCGA-37-3783-01A-01R-1201-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE185519_1_v_2_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Cognition Disorders	CTD Gene-Disease Associations	1.0	1.14747
primary auditory cortex (core)_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.12496
digestive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
CTCF_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE215086_0_v_1_batf_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE186810,GSE186813_3_v_5_furin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
JUN	ENCODE Transcription Factor Targets	1.0	null
Brain_Germinal_Matrix	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-0.900725
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_5_CXCL10-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
RAD21_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW 48	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.14388
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-VS-A8EL-01A-11R-A37O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE57871_8_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
macrophage	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.07371
periventricular stratum of VTTh	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00442
H3K4me3_choroid plexus epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me2_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SP4	ENCODE Transcription Factor Targets	1.0	null
CTCF_fibroblast of lung_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE186810,GSE186813_2_v_0_furin_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
r7 part of parapyramidal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.6374
GSE254517_2_v_0_irf7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_BJ_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Lateral visual area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.06721
Weight Gain	CTD Gene-Disease Associations	1.0	1.21727
GSE147943_2_v_3_cited2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE245407,GSE245412_0_v_1_smurf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-548b-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
superficial stratum of r11Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.02893
mRNA_MYOD1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
primary auditory cortex (core)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.894006
RAD21_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE113106_3_v_4_dnm2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE223241_2_v_0_cdkn2a_human	RummaGEO Gene Perturbation Signatures	1.0	null
PAX5_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE120612_7_v_2_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_MCF-7_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE130081,GSE130082_0_v_1_neil2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_cardiac mesoderm_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMC3	ENCODE Transcription Factor Targets	1.0	null
TRPV4_DEPLETION_GDS4851_89_mouse_3T3-F442A adipocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.864208
GSE150072,GSE169209_6_v_9_qser1_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2AphosphoS5_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Tatton-Brown-Rahman syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.208
Primary somatosensory area, barrel field, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.5696
PMC7941712-40478_2021_1135_MOESM12_ESM.xlsx-Table_S4D_DEG_ST-EPN-RELA-Unnamed_6_RELA	Rummagene Transcription Factor Associations 2026	1.0	null
PMC5474565-onc2016488x2.xlsx-Table_S4_MLL_Target_Genes-THP-1_MLL-AF9_target_genes_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_astrocyte of the spinal cord_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DMS 53	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.0375
8963_TMA16_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00876
GSE226316_1_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DAUDI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.43566
Brain Lower Grade Glioma_LGG_TCGA-HT-A4DS-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_SK-N-SH_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE228181_2_v_1_idh1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EB2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.901542
H3K4me1_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE205540_2_v_1_phloridzin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_7129_OE_Ppp3cc_SRP321708	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Head and Neck squamous cell carcinoma_HNSC_TCGA-H7-A76A-01A-51R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BHLHE40_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD4	ENCODE Transcription Factor Targets	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-5175-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_fibroblast of gingiva_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-let-7i	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
liver	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.0043
GSE95771_0_v_3_ruxolitinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
r2 part of trigeminal transition zone	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.16495
PMC8208823-mmc2.xlsx-CDX2-KO_mesenchymal_DEG-feature_CDX2	Rummagene Transcription Factor Associations 2026	1.0	null
8415_SRP54_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.38195
primary motor cortex (area M1, area 4)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.20738
GSE164757,GSE164759_4_v_2_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
POLR2A_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mesothelioma_MESO_TCGA-TS-A7OY-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
928 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.0163
GSE212486,GSE212488_0_v_1_gata4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10592471-NIHMS1912771-supplement-7.xlsx-D-Enh_vs_AA-all_DE-Aza_atRA_DE_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
basolateral amygdaloid nucleus, posterior part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.41388
GSE48812_8_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE214931_2_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_MCF-7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.34924
hsa-miR-4516	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
r5 part of the oral Sp5 subnucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05172
CUX1	ChEA Transcription Factor Targets	1.0	null
CHD2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE224969,GSE224971_0_v_5_chtop_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TAF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12179525-mmc1.xlsx-Group_HNF4A_vs_Null_sign-Supplemental_Table_S1_Differentially_expressed_genes_in_HNF4A-transduced_cells_vs_Null_HNF4A	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_12660_KD_NFE2L2_SRP242008	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE205332_1_v_0_queuine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Ovarian Diseases	CTD Gene-Disease Associations	1.0	1.31446
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A7II-01A-11R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A42Y-01A-12R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
paracentral lobule, posterior part, right, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.14293
E2F4	ENCODE Transcription Factor Targets	1.0	null
GSE215086_0_v_1_batf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
DB-21-FY75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.532216
GSE229468,GSE229471_0_v_1_znf587_human	RummaGEO Gene Perturbation Signatures	1.0	null
AB-33-EM56_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.329335
H3K4me3_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE180200,GSE180201_15_v_1_qpctl_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Colitis	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
KYSE-450	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.851567
intracellular non-membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.050479
disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.041775
NRL_Deficiency_GDS1693_235_mouse_Photoreceptors cells of retinas at E16	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Perturb_1807_KO_lncFAO_SRP192861	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.27623
GSE199204,GSE211619_4_v_5_glutamine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE142210_9_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE226316_6_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
IC-80-CT90_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.218279
POLR2A_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE145445,GSE145454_0_v_1_cop1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-46-3767-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Immune system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
Fatty Liver	CTD Gene-Disease Associations	1.0	1.56141
GSE226249_0_v_4_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCT-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.863572
PHIP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03005
GSE214931_4_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11237048-41598_2024_64364_MOESM1_ESM.pdf-60-PAX8-AS1_PAX8	Rummagene Transcription Factor Associations 2026	1.0	null
GSE120612_6_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
inner portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.885376
r2 part of principal trigeminal sensory nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33283
GSE153189_1_v_0_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
2125_DDX49_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.33137
laterodorsal subdivision of area 8	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.866993
MAZ_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE184902_4_v_0_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ZNHIT6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.2455
PMC10561055-mmc3.xlsx-LPS_T2-gene_name_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
SKBR3	CCLE Cell Line Gene CNV Profiles	1.0	1.93133
GSE106170_1_v_0_nap1l3_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE153189_2_v_0_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE137914_0_v_3_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
COLO 829	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18652
CDY2A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.97999
CTCF_fibroblast of upper leg skin_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-97-8174-01A-11R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE148066,GSE157787_5_v_10_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE206870,GSE206872_1_v_5_ascl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
posteroventral (inferior) parietal cortex_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.73528
Perturb_10677_KD_MTF2_SRP105765	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
KDM5B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE246911,GSE246913_4_v_1_arid1a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
UBTF_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
zfx_17448993_embryonic_stem_cell_lof_mouse_gpl1261_gds2718	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.053496
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A5UD-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_fibroblast of pulmonary artery_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
terminal subparaventricular area of THyA	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.39521
PMC10703699-41588_2023_1554_MOESM3_ESM.xlsx-T4C_BATF3_downreg_padj_0_01-Gene_Name_BATF3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE169571_3_v_4_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GC-07-UO80_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.208044
GSE215351,GSE215794_4_v_0_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE129772_2_v_3_runx3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Prostate adenocarcinoma_PRAD_TCGA-G9-7523-01A-11R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-67-3770-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma_LUAD_TCGA-35-4122-01A-01R-1107-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE140997_10_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H2110	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.12337
posteroventral (inferior) parietal cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.82406
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-5888-01A-11R-1592-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GATA2_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE138818_1_v_0_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Breast Neoplasms	CTD Gene-Disease Associations	1.0	1.34635
HCC1011	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.08429
Nucleus of the lateral lemniscus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.03723
mediodorsal nucleus of thalamus_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.10427
PAX5_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HLE	COSMIC Cell Line Gene Mutation Profiles	1.0	null
hsa-miR-3973	TargetScan Predicted Conserved microRNA Targets	1.0	1.45615
KARPAS-620	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.98065
Acute Myeloid Leukemia_LAML_TCGA-AB-2927-03A-01T-0740-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE237040_0_v_5_notch3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE220520_6_v_0_ethanol_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Liver Neoplasms, Experimental	CTD Gene-Disease Associations	1.0	1.09716
HCFC1	ENCODE Transcription Factor Targets	1.0	null
PMC5105166-ncomms13331-s5.xlsx-Sheet1-Supplementary_Data_4_Gene_expression_signature_of_MEF2D-rearranged_cases_stranded_data_only_MEF2D	Rummagene Transcription Factor Associations 2026	1.0	null
7510_RPS20_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.26421
GSE120612_4_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE128634,GSE128636_4_v_5_foxo1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TBP_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE227592_13_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE176555,GSE176556_1_v_0_acriflavine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE142210_9_v_1_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CDK2AP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27504
TAL1_megakaryocyte_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7472_RPL3_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.22545
SG in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.22076
NCI-N87	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.992926
PMC5630028-supp_gr.220533.117_Supplemental_File_S2_Total_RNAseq_data.xlsx-HCT116_TP53_KO-Unnamed_1_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
AARS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.50461
KDM5A	ENCODE Transcription Factor Targets	1.0	null
GSE89018_11_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-7068-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZEB1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4595011-pgen.1005555.s001.xlsx-MITF_UP-regulated-Gene_name_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
GSE134615_1_v_0_lats1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4342-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE111102,GSE111105_3_v_5_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Combined-MYB_Combined_sgRNA_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
HCC515	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08837
THAP1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
NOL10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.2754
GSE196835_0_v_1_ddx1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CAPS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.90395
NCIH1755	DepMap CRISPR Gene Dependency	1.0	2.82518
GSE169152_5_v_4_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE185519_6_v_0_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE135030_8_v_7_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_WERI-Rb-1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CORL279	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36416
IRF1	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-UN-AAZ9-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VZ in dorsomedial extrastriate cortex (V2)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.08758
GSE148066,GSE157787_5_v_6_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Rectum adenocarcinoma_READ_TCGA-EF-5830-01A-01R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE229468,GSE229471_2_v_1_znf587_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE92457_9_v_10_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Posterolateral visual area, layer 4	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.71683
mantle zone of r10Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.32479
GSE114013,GSE114014_1_v_4_itraconazole_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC9288051-13046_2022_2428_MOESM5_ESM.xlsx-Super_enhancers_in_T-ALL1-CLOSEST_GENE_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
Adrenocortical carcinoma_ACC_TCGA-OR-A5J8-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
IB-33-TE51_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.604766
CTCF_kidney_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B4-5378-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JcPL part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01952
TAL1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
outer CP in posteroinferior (ventral) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.16782
ESRRB-18555785-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
dorsal septopreoptic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.05379
GSE148269,GSE148273_0_v_1_arid4b_human	RummaGEO Gene Perturbation Signatures	1.0	null
ELF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242199_9_v_5_ntrk2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Inflammatory bowel disease 6	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.136
GLT8D1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15458
PMC10981674-42003_2024_6055_MOESM6_ESM.pdf-0-GATA6_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
GSE242083,GSE242098_3_v_4_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8323949-pcbi.1009228.s007.xlsx-HNSCC_ALL_exceptLN-X17_ZNF717	Rummagene Transcription Factor Associations 2026	1.0	null
EZH2_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
10040_ZCCHC9_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.19063
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	1.5188
SMAD4	ChEA Transcription Factor Targets	1.0	null
HMOX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1829
HDAC2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A3SP-01A-31R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CDX2	ChEA Transcription Factor Targets	1.0	null
TAL1_megakaryocyte_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF384	ENCODE Transcription Factor Targets	1.0	null
GSE215351,GSE215794_1_v_0_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SUZ12	ENCODE Transcription Factor Targets	1.0	null
GSE210870_0_v_2_snai1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE239688_4_v_0_canagliflozin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_6518_KD_S100A4_SRP105051	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-9.6687
PMC10153265-media-3.xlsx-BENPORATH_OCT4_TARGETS_v2023_1-STANDARD_NAME_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE154081_1_v_0_sildenafil_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
EP300_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
TCF7L2_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UMC-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.84902
PMC7397849-supp_gad.338681.120_Supplemental_Table_S2.xlsx-S2B_in_vivo_shared-Suppl_Table_S2B_shared_genes_between_RCAS-YAP1-MAMLD1-dR3R1_RCAS-YAP1-FAM118B_RCAS-YAP1-TFE3_in_vivo_tumors_RCAS_mouse_TFE3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE127790_5_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE139455_2_v_5_stat3_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_Panc1_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE169152_5_v_6_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Sarcoma_SARC_TCGA-DX-A6BE-01A-41R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE139120_1_v_0_urod_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-A6DG-01A-21R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
OB-06-WW76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.2404
GSE159148_0_v_1_sdc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE226249_2_v_1_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
salivarygland	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.944617
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-1_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
medial subhabenular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.56274
H3K4me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
inferior rostral gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.12588
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Parapyramidal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-4.10201
GSE174498,GSE174500_0_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE156907,GSE160237_1_v_0_pten_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hsa-miR-4529-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
YY1	JASPAR Predicted Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-F9-A7Q0-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HAND2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.6048
H3K4me3_GM12864_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ML-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.11287
STAT6	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE246184,GSE246195_0_v_1_sin3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE210580_0_v_11_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.04048
SK-MM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.14383
POLR2A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188870,GSE188871_0_v_5_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
LCAM1	DepMap CRISPR Gene Dependency	1.0	2.43497
primary visual cortex (striate cortex, area V1/17)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.92087
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_4_FDC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
intrinsic component of membrane	GO Cellular Component Annotations 2015	1.0	null
ATP5F1E	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.48916
P63_DEPLETION_GDS2534_63_human_ME180 cervical carcinoma cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE147943_4_v_6_cited2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_fibroblast of foreskin _hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE103068_5_v_1_volasertib_human	RummaGEO Drug Perturbation Signatures	1.0	null
hematopoietic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056899
GSE214335_1_v_0_sox9_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE129389_0_v_5_tropifexor_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
OSR2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.8786
H3K27me3_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
midbrain reticular formation	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.15313
hsa-miR-548ab	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
PMC6555970-40246_2019_210_MOESM1_ESM.xlsx-LF_genes_R_genes-Common_genes_in_all_LF_species_not_found_in_common_genes_of_R_species_LTF	Rummagene Transcription Factor Associations 2026	1.0	null
Supraoptic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.07757
DB-54-GQ68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.27407
Perturb_13439_KD_Myb_SRP119047	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
hsa-miR-548i	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A6ZZ-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ING2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.38831
organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.041089
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1869	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.939748
Colon	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
MAX_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE86507,GSE86509_0_v_1_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RAD21_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUND	ENCODE Transcription Factor Targets	1.0	null
superficial stratum of the Fc	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.10349
Perturb_278_KD_ZHX2_SRP343502	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
primary visual cortex (striate cortex, area V1/17)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.08813
Perturb_933_KD_TLX1_SRP132967	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.80415
NUGC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.40924
outer CP in granular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.900221
CREB1	ENCODE Transcription Factor Targets	1.0	null
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Ectorhinal area/Layer 5	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.02708
hsa-miR-548ak	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
GSE203329_0_v_1_mettl5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9746818-jciinsight-7-152886-s077.pdf-18-ENSG00000196843_ARID5A	Rummagene Transcription Factor Associations 2026	1.0	null
pyramidal layer of IG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27996
GSE182680,GSE182683_7_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
outer CP in dorsomedial extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.70177
Prostate adenocarcinoma_PRAD_TCGA-EJ-7125-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
blood platelet disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.33944
RFX5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of skin of abdomen_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_6373_KD_COP1_SRP073333	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
Fetallung	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.895278
NHA	CCLE Cell Line Gene CNV Profiles	-1.0	-1.52151
GSE140997_4_v_6_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_6847_KO_PHGDH_SRP261092	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	18.3768
NCI-H889	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.04139
PHF8_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE160083,GSE160084_1_v_3_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE223334_3_v_2_bcl11b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RFX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.5054
GSE155162,GSE155169_1_v_2_buparlisib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SMARCA4	ChEA Transcription Factor Targets	1.0	null
mammillary body, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.13128
CTCF_epithelial cell of proximal tubule_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-4143-01A-01R-1188-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_14436_OE_Cyp17_SRP340317	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	6.65946
GSE202434,GSE202438_6_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
claustrum, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.01425
GSE225869_2_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-4469	TargetScan Predicted Conserved microRNA Targets	1.0	0.714812
PMC4838354-supp_gkv1491_nar-01150-met-k-2015-File010.xlsx-ChIP-seq_defined_target_genes-PBX1_and_Notch3_common_target_gene_list_621_PBX1	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_11589_OE_OSKM_SRP099842	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
Kidney renal papillary cell carcinoma_KIRP_TCGA-A4-7915-01A-11R-2204-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC9013128-NIHMS1795992-supplement-6.xlsx-ARID2_MUT_Dowregulated-Gene_name_ARID2	Rummagene Transcription Factor Associations 2026	1.0	null
RAD21_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-50-6594-01A-11R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
lateral anterior hypothalamic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.01662
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5094-01A-01R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AKT1_druginhibition_81_GSE26290	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.42728
GSE206516,GSE206518_1_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE102467_1_v_0_pazopanib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RBPJ	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.7344
GSE184087_4_v_1_tert_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_GM12864_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE137325_3_v_0_copanlisib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE166169_1_v_3_elp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE239688_4_v_1_canagliflozin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE148510_3_v_2_bmal1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GA-43-FL03_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.366435
GSE127790_4_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A1MK-01A-11R-A14Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.6325
YY1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_17248_OE_Tnfsf15_SRP106312	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	8.01606
A-CA-04-2009(H1N1)_18Hour_None_GSE37571	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.52892
POLR2A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEAD4_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCFC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_A549_hg19_10	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE175787_4_v_0_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
kidney	HPA Tissue Protein Expression Profiles	1.0	0.860608
GSE98964_0_v_2_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Striatum dorsal region	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12756
GSE205730,GSE205731_2_v_1_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
7469_RPL38_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.41714
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Increased_in_both_CSDE1_KD_hESC-gene_short_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
IC-28-HS37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.562843
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_foreskin fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_11763_KO_Irgm1_ERP020504	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.40767
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A3OP-11A-11R-A220-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE213588_8_v_7_trametinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZBTB26	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.4505
anterior (rostral) cingulate (medial prefrontal) cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.07276
CORL51	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66363
Rectum adenocarcinoma_READ_TCGA-DC-4745-01A-01R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
alimentary canal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
polysensory temporal cortex (area 22p)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.42958
Spinal nucleus of the trigeminal, caudal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.76437
RAD21_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE206516,GSE206518_5_v_7_ptdss2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
U266B1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.61502
GSE203158_0_v_14_aire_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
gata1_15860665_megakaryocytes_lof_mouse_gpl1261_gds1245	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.391349
HEC265	CCLE Cell Line Gene CNV Profiles	-1.0	-2.00725
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_2_TBRC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE240809_0_v_1_hnrnpa2b1_human	RummaGEO Gene Perturbation Signatures	1.0	null
496100345_FWM_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.88443
SMAD4-19686287-HaCaT-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
TIPIN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15651
H3K4me3_A549_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
GSE169334,GSE169336_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
7449_RPL23A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.3095
GSE228017_0_v_1_parthenolide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_MCF-7_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCFC1_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kasumi-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.907
HDAC2_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Primary somatosensory area, barrel field, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.68762
Sarcoma_SARC_TCGA-DX-A8BS-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE169590_0_v_1_rptor_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE184884_6_v_5_gps2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
7751_SEC61A1_P1	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.20609
SLFN12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.43707
r9 part of the inferior olive	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.34639
POLR2A_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EC-98-YS67_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.224756
r10 part of the vestibular column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.46519
OCI-AML2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.06376
Acute Myeloid Leukemia_LAML_TCGA-AB-2900-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H1703	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.83391
non-membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.049722
dorsal cortical nucleus of inferior colliculus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.56133
RAD21_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MY-A5BF-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
amygdalohippocampal transition zone, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.05322
hsa-miR-559	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.874352
GSE89018_6_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE111247_14_v_3_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE190235_1_v_2_foxo3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_242_KD_Blimp1_SRP094038	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	13.0676
GSE198982,GSE198986_1_v_2_daunorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7443_RPL18_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.63931
GSE256181_2_v_0_etv2_human	RummaGEO Gene Perturbation Signatures	1.0	null
ZNF263_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE134896_0_v_3_progesterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE202434,GSE202438_10_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_GM12866_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MTA3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE120612_4_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TBL1XR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242049_1_v_0_glutathione_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
TF-60-NH65_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.229463
Perturb_10667_OE_PAX3FOXO1_SRP371512	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.54134
hsa-miR-4633-3p	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
GSE237040_0_v_1_notch3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Disease of anatomical entity	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
Perturb_2881_KD_YAP1/WWTR1_SRP201886	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	8.18293
DC-51-WE27_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.515151
CTCF_GM12871_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZMIZ1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.51177
H3K27ac_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE205556_2_v_0_bexarotene_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_813_OE_TRIB3_SRP262247	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.33809
CTCF_A549_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-3.46326
7461_RPL34_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.26266
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5400-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7328-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_17380_KD_Stat6_SRP190223	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.04541
r2 part of ventral lateral lemniscal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.12303
H3K36me3_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1581	CCLE Cell Line Gene CNV Profiles	-1.0	-1.63259
PAX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7474_RPL4_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.39714
GSE202434,GSE202438_15_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
STAT3	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_SK-N-MC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE202434,GSE202438_3_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE174701_1_v_2_maml3_human	RummaGEO Gene Perturbation Signatures	1.0	null
RAD21_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EFO-27 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.971
Perturb_3761_KD_VPS28_SRP325061	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.70765
Pheochromocytoma and Paraganglioma_PCPG_TCGA-RW-A67X-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
endopiriform nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.935407
KMRC-20	COSMIC Cell Line Gene Mutation Profiles	1.0	null
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58126
Bone marrow cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.096
H3K4me1_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_BJ_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FAM229A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04351
HSMM	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.04563
preoptic region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.909328
GSE134214_0_v_1_ell2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_2173_KO_Gsdmd_SRP366634	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.45424
GSE128076_1_v_0_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Mesothelioma_MESO_TCGA-SC-A6LP-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HDAC2	ENCODE Transcription Factor Targets	1.0	null
HCC1319	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.62831
7729_SDR39U1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.02145
Liver hepatocellular carcinoma_LIHC_TCGA-BC-A10U-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC9334849-Table_3.xlsx-subcutaneous_adipose_tissue-D1_VS_D9_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
GSE148066,GSE157787_9_v_6_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
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	-0.848001
GATA2	ChEA Transcription Factor Targets	1.0	null
SW1088	CCLE Cell Line Gene CNV Profiles	1.0	1.35405
H3K4me1_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
SP4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Increased_in_both_CSDE1_KD_hESC-gene_id_AR	Rummagene Transcription Factor Associations 2026	1.0	null
COLO201	CCLE Cell Line Gene CNV Profiles	1.0	2.85725
9820_WDR43_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.20927
TAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_5816_OE_Erg_SRP239807	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE238116_3_v_2_egr1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Neurological pain disorder_CNS - Spinal Cord (MMHCC)_GSE18803	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.53395
GSE169155_5_v_4_acetaminophen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE196699_2_v_3_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100513_TCx_no dementia_TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.04117
PMC10242447-mmc2.xlsx-TI_DEGs-Table_S1_TIGs_Comparison_between_each_trained_monocyte_sub-population_T3m_LPS_with_monocytes_T0_LPS_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
IZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.966698
Perturb_17145_OE_Xbp1_ERP110244	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.29932
Perturb_15438_KD_NUSAP1_SRP074246	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
4939_MED17_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.30552
cerebellar cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.920498
GATA2	ENCODE Transcription Factor Targets	1.0	null
GSE172189_0_v_1_venetoclax_human	RummaGEO Drug Perturbation Signatures	1.0	null
primary visual cortex (striate cortex, area V1/17)_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.03915
CPSF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.12119
Lung Neoplasms	CTD Gene-Disease Associations	1.0	1.16302
Lung adenocarcinoma_LUAD_TCGA-50-5068-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE122215,GSE122217_5_v_1_peg10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-G7-A8LC-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DB-21-FY75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.243319
inferolateral temporal cortex (area TEv, area 20)_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.971144
Inflammation	CTD Gene-Disease Associations	1.0	1.83025
Lung adenocarcinoma_LUAD_TCGA-73-4676-11A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE190316,GSE190324_6_v_11_rbm4_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC11979751-table_s2_markers_elad055.xlsx-Melanoma_GSEA_state_markers-AP2_GTF3A	Rummagene Transcription Factor Associations 2026	1.0	null
NCIH2171	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33561
GSE190316,GSE190324_6_v_9_rbm4_human	RummaGEO Gene Perturbation Signatures	1.0	null
EOMES	ChEA Transcription Factor Targets	1.0	null
SG in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.24573
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E20-D3_1775_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_H54_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H23 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.735
GSE200673,GSE200691_2_v_4_hmga2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MXI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
corticoid layer of TuStr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.06499
GSE168401_1_v_0_harmine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
STAT3_deficiency_GDS3106_58_mouse_type II alveolar cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE124410_3_v_0_stk40_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE153189_2_v_3_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF830	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07425
MAX_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VIIIA, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.841478
H3K27ac_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ERF::FOXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.085
GSE86507,GSE86509_7_v_1_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
STAT5A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4707-01A-01R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE205730,GSE205731_2_v_3_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
REST_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE186483_1_v_4_lrrk2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CD34+	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.55362
NELFE_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE226983_1_v_0_ddx5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
sirolimus_mus musculus_gpl1261_gse5332	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Mammary-fibroblast of breast	Tabula Sapiens Gene-Cell Associations	1.0	3.44711
GSE226249_0_v_3_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
JcPV part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.20034
GSE166920_6_v_5_adalimumab_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE144120_3_v_1_plcg2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE145249_0_v_2_ppm1g_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE149621_3_v_1_olaparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Autoimmune disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
H3K4me1_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.850224
Perturb_12645_KD_SIRT5_SRP311327	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GATA1_G1E-ER4_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF1	ENCODE Transcription Factor Targets	1.0	null
Alimentary canal	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
TRIM28	ChEA Transcription Factor Targets	1.0	null
anterior group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.45752
GSE216540_1_v_6_fulvestrant_human	RummaGEO Drug Perturbation Signatures	1.0	null
KA-29-AB08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.788623
GSE147876,GSE147877_2_v_3_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE48812_3_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC7680901-Table_6.xlsx-both_up_GSE117165-SETBP1_SETBP1	Rummagene Transcription Factor Associations 2026	1.0	null
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.19203
GSE202434,GSE202438_6_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2AphosphoS5_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168587,GSE168752_3_v_1_tp53_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Retrosplenial area, dorsal part, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.10443
NCI-H2110	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.839125
RELB-30642670-CTB1-HUMAN-PLACENTA-INFLAMMATION	ChEA Transcription Factor Targets 2022	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-QH-A6CV-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mantle zone of m1AL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.09375
SP in rostral perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.2311
TEAD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.528
GSE182181_1_v_0_ricolinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC8481886-Table_2.xlsx-A_subsets-AF_MSC_UdRPC_HSC_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_GM12878_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_HL-60_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE171572_3_v_4_tp53_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE215086_3_v_6_batf_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC7029036-41598_2020_59469_MOESM2_ESM.xlsx-NR4A1_vs_GFP_adj_pval_0_05-Gene_NR4A1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE201668_0_v_1_ncor2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_6447_OE|KD_EGFR|TRIM24_SRP100743	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
Posterolateral visual area, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.45107
KF-18-RY71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.738601
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Change_in_both_CSDE1_KD_hESCs-gene_id_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H2AFZ_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_BE2C_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE207471_2_v_3_btla_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE118794_0_v_4_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE94849_6_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
suprachiasmatic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.3625
MOLM6	CCLE Cell Line Gene Expression Profiles	1.0	1.3816
OB olfactory fiber layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.58206
KMS-12-PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.10356
cell part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040737
GSE180200,GSE180201_15_v_9_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
layer III of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.08744
SMC3_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_retinal pigment epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GR	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE149903_5_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-2_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
MTA3	ENCODE Transcription Factor Targets	1.0	null
GSE172295_3_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
medial nucleus of pulvinar	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.00876
TE6	CCLE Cell Line Gene CNV Profiles	1.0	1.69084
disease of metabolism	GWASdb SNP-Disease Associations	1.0	0.085163
CEBPB	ENCODE Transcription Factor Targets	1.0	null
GSE202434,GSE202438_10_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A85I-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_Panc1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
REST_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BDCA4+_DentriticCells	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.05244
GSE114013,GSE114014_0_v_4_itraconazole_human	RummaGEO Drug Perturbation Signatures	1.0	null
PML_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE202434,GSE202438_15_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SYPL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23643
GSE228181_3_v_5_idh1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_BJ_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_CD4+ CD25int CD127+ Tmem Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
NB-80-IM48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.13259
MYC_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-6406-01A-11R-1708-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE234514,GSE234516_1_v_3_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
PMC8405683-41419_2021_4120_MOESM2_ESM.xlsx-Sheet1-Table_S2_MYCN-responsive_gene_list_1_5_fold_p_0_05_MYCN	Rummagene Transcription Factor Associations 2026	1.0	null
HB-06-WU12_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.741001
cerebellar cortex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.01812
POLR2D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.99731
bone	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.959223
AB-84-PK04_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.365083
medial mammillary nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.56674
MAX_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-5152-01A-02R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HD-51-KD29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.40146
H3K4me3_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
lower limb region of M1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.16421
interleukin-7 receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.054
GSE158632_3_v_0_oxyquinoline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
9617_URB1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.02209
GSE95688_1_v_0_glutathione_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_4584_KO_Socs3_SRP099234	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	9.59311
GSE158834_7_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE96649_1_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
E2F6	ENCODE Transcription Factor Targets	1.0	null
NCIH510	DepMap CRISPR Gene Dependency	1.0	2.25626
Perturb_1181_KD_CBFB_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.51385
DC-51-WE27_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.42896
GSE140997_10_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_choroid plexus epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FARAGE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.29674
H3K4me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1	MotifMap Predicted Transcription Factor Targets	1.0	null
CTCF_GM12872_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
neuroblastoma cell	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
FOS	ENCODE Transcription Factor Targets	1.0	null
GSE112760,GSE112767_4_v_5_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_17379_KD_Pparg_SRP190223	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.82541
GSE143643,GSE143644_2_v_0_hdac3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NAA15	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18229
POLR2A_GM18951_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-K1-A42W-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE199255,GSE199356_4_v_5_pds5a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01151
CHD1	ENCODE Transcription Factor Targets	1.0	null
GSE111247_14_v_10_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE214823,GSE214824_0_v_2_crtc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE142210_2_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_HL-60_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE125153_1_v_3_bcl3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE155852_0_v_1_apigenin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Microglial cell_Brain_Human	CellMarker Gene-Cell Type Associations	1.0	null
Thrombocytopenia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.138
SKOV3	DepMap CRISPR Gene Dependency	1.0	2.29154
PMC9288051-13046_2022_2428_MOESM4_ESM.xlsx-Super_enhancers_in_AML3-OVERLAP_GENES_RUNX2	Rummagene Transcription Factor Associations 2026	1.0	null
ZNF282	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	61.5782
Multilymphoid progenitor cell_Umbilical cord blood_Human	CellMarker Gene-Cell Type Associations	1.0	null
EBF1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE210580_0_v_12_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ME-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.25827
CTCF_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mantle zone of the IG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28073
piriform cortex, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.04169
tissues, cell types and enzyme sources	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
8078_SLC39A7_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.15651
GSE120612_7_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE215086_0_v_2_batf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE146074_0_v_7_ly6e_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE164874_5_v_9_prednisolone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
COPB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59555
Musculoskeletal system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
GSE147210_3_v_5_kmt2d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE162688_1_v_4_pink1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
5908_NUTF2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.50014
nucleus of Darkschewitsch, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.891581
EP300_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
duodenum	HPA Tissue Protein Expression Profiles	1.0	1.61709
HDAC6_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
LP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.45247
RPMI-7951	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.97177
Lung adenocarcinoma_LUAD_TCGA-49-4490-11A-01R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE158502,GSE158506_3_v_0_fat1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MF-11-EW49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.22912
rat	GeneRIF Biological Term Annotations	1.0	null
GSE254517_3_v_0_irf7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ELF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
periventricular stratum of Pal	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01324
CTCF_GM12864_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6420765-12864_2019_5550_MOESM4_ESM.xlsx-R_D4_vs_D9-gene_id_y_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
SET	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07472
GSE201309_1_v_2_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
COLO-818	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.887365
TE5	DepMap CRISPR Gene Dependency	1.0	2.10768
EP300_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8851354-Table_6.xlsx-STAT3-bound_genes_GM12878-Supplementary_Table_6_STAT3-bound_unique_genes_in_GM12878_cells_STAT3	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H82	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.839125
TRIM28	ENCODE Transcription Factor Targets	1.0	null
GSE244710_3_v_2_srsf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
OVCA 420	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.970318
intermediate stratum of Mam	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.56589
Perturb_10642_KO_Itgb1_SRP068845	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
H3K4me3_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE226249_0_v_7_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_cardiac muscle cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193993_4_v_2_sstr2_human	RummaGEO Gene Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.04868
skin	HPA Tissue Gene Expression Profiles	-1.0	-1.20119
GSE98755,GSE98756_3_v_0_fbxl19_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pancreas	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-2.14919
GSE163862_2_v_3_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-66-2768-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
primary visual cortex (striate cortex, area V1/17)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.951472
H3K4me3_fibroblast of the aortic adventitia_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_bronchial epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
anterior (rostral) cingulate (medial prefrontal) cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01595
H3K4me3_fibroblast of villous mesenchyme_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
pineal_day	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.928732
nucleus accumbens, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.960644
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	1.39145
GSE120612_7_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC8191339-mmc1.xlsx-Table_S3_DE_genes-LPS_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H716	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.923249
GSE101112_0_v_2_j147_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
TEAD4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.9297
Kidney renal papillary cell carcinoma_KIRP_TCGA-SX-A7SQ-01A-12R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NR2F2	ENCODE Transcription Factor Targets	1.0	null
GSE186810,GSE186813_2_v_0_furin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE149903_3_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of lung_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
isthmic vestibulocerebellar nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0555
CTCF_foreskin fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-VS-A953-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE94814_1_v_0_reck_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IF-87-AU84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.319971
GSE185519_3_v_2_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE159728,GSE159730_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
reports	GeneRIF Biological Term Annotations	1.0	null
JD-81-YX02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.488355
KB-46-EJ60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.459428
YD-49-HM53_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.742668
H3K4me3_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
6874_PSMD6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.77191
Perturb_1725_KO_Tet2_SRP353433	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-16.9523
vestibular nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.22677
Nucleus of the lateral lemniscus, ventral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.43407
FA-63-WI26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.451232
Radotinib_SW48	Tahoe Therapeutics Tahoe 100M Perturbation Atlas	1.0	0.0181163
NCIH1355	DepMap CRISPR Gene Dependency	1.0	2.15284
Ectorhinal area/Layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.44606
primary auditory cortex (core)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.911933
TIS granule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.045
oculomotor nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.03693
inner CP in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.871225
GATA1_G1E-ER4_mm9_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-6022-01A-21R-1686-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC11143203-41422_2024_945_MOESM13_ESM.pdf-23-ZNF683_ZNF683	Rummagene Transcription Factor Associations 2026	1.0	null
IC-05-AW29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.397343
GSE210870_0_v_1_snai1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VB-48-KG22_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.276709
CTCF_foreskin fibroblast_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE202434,GSE202438_6_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
MOLM16	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47482
wt1_17420277_e11dot5_urogenital_ridge_lof_mouse_gpl1524_gds2747	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.249383
Viscus	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE140200_1_v_3_trim59_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
bone marrow	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.315498
hsa-let-7d	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
Lung squamous cell carcinoma_LUSC_TCGA-22-5492-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE118816_0_v_3_myo1c_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE149903_4_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Foxo3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	17.1237
GSE188870,GSE188871_1_v_2_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BD-63-KJ69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.200154
CTCF_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTF2A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23985
GSE202434,GSE202438_4_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE201309_1_v_8_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
diabetes mellitus	GWASdb SNP-Disease Associations	1.0	0.296258
Perturb_1424_KD_RUNX3_SRP159180	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.1515
GSE139325_0_v_3_cd36_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_fibroblast of foreskin _hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JF-16-BD66_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.260266
Large intestine	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-LP-A5U3-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE112760,GSE112767_2_v_5_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_13019_KO_ALOX5_SRP367905	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	8.69409
Brain Lower Grade Glioma_LGG_TCGA-QH-A6XC-01A-12R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF	ENCODE Transcription Factor Targets	1.0	null
CHD7	ENCODE Transcription Factor Targets	1.0	null
GSE205976,GSE205978_1_v_0_cep83_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-4758-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
POLR2A_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14730_KD_MAZ_SRP338457	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
CIP2A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.30734
Poisoning	CTD Gene-Disease Associations	1.0	1.71009
urogenital system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
496100407_FWM_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.06009
GSE156667_0_v_1_lrrc8a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC11743796-41420_2025_2295_MOESM5_ESM.xlsx-aged_LPS_BV-2_vs_human_upreg-mouse_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
RBM28	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	4.44253
PAX5_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-J9-A52E-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OC-21-IP52_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.280358
H3K4me3_fibroblast of upper leg skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CBX3_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFA	MotifMap Predicted Transcription Factor Targets	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.9253
PLIN5_OE_GSE44192_482_mouse_heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Perturb_1756_KO_Ripk3_SRP226420	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.54136
GSE202434,GSE202438_8_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	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	-1.39726
PMC5263239-mmc2.xls-MV4_11_-_MLL-AF4-Spreading_targets_gene_names_129_unique_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
GSE120413,GSE120447_4_v_5_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Sarcoma_SARC_TCGA-DX-A6YZ-01A-12R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC2688	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922476
Gastrointestinal system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
RKN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.92302
ZNF135	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.88908
H3K4me3_cardiac mesoderm_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
LSM8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18873
Perturb_4387_KO_STAG2_SRP348449	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.1279
interstitial nucleus of Cajal, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.249
Perturb_6985_OE_Ppp3cc_SRP321708	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
adipose tissue	HPA Tissue Gene Expression Profiles	1.0	2.24557
GSE179880_7_v_5_e2f4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H4C1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10171
caudate nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.40285
STAT5A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE135030_11_v_0_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
lateral tuberal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.1131
GSE222598_1_v_0_sf3b4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_12769_KO_p38alpha_SRP339361	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.16986
HCC2157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30778
H3K4me3_Jurkat_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Drug-Induced Liver Injury	CTD Gene-Disease Associations	1.0	1.80961
GSE199204,GSE211619_4_v_6_glutamine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE190322,GSE190324_3_v_4_rbm4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NFIC	ENCODE Transcription Factor Targets	1.0	null
parvocellular part of r8LRt	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.8655
GSE185139_1_v_2_doxorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCC1395	DepMap CRISPR Gene Dependency	1.0	2.7949
GSE184902_3_v_1_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
periventricular stratum of TPaA	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.09661
Sarcoma_SARC_TCGA-DX-A3U6-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
r10 part of external cuneate nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.03148
Perturb_6708_KO_KDM3A_SRP128505	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-13.6544
PMC11551338-pnas.2411189121.sd01.xlsx-PXR-Unnamed_0_NR1I2	Rummagene Transcription Factor Associations 2026	1.0	null
HOXD8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04379
GSE254155_1_v_0_per2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE215086_1_v_6_batf_human	RummaGEO Gene Perturbation Signatures	1.0	null
primary auditory cortex (core)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.95649
RAD21_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE128076_2_v_3_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MAFK_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE148692,GSE148695_2_v_6_satb2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
IGR39	DepMap CRISPR Gene Dependency	1.0	2.27339
membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
superficial stratum of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00883
r10 part of spinal vestibular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.93993
Prostate adenocarcinoma_PRAD_TCGA-EJ-7797-11A-01R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.40368
Cancer of Colon_Intestine - Large Intestine - Colon (MMHCC)_GSE4107	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.79814
GSE148066,GSE157787_3_v_10_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FOXC1	JASPAR Predicted Transcription Factor Targets	1.0	null
hsa-miR-548y	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
Prostate adenocarcinoma_PRAD_TCGA-G9-6348-11A-01R-1789-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCIH211	CCLE Cell Line Gene CNV Profiles	-1.0	-1.71927
GSE214931_3_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE185519_1_v_7_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ESRRB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9937
RT112	DepMap CRISPR Gene Dependency	1.0	2.88935
hsa-miR-1343	TargetScan Predicted Conserved microRNA Targets	1.0	0.632343
SG in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.04049
GSE168596_1_v_3_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
DHX33	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.4612
7522_RPS2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.86281
ctnnb1_19652203_myeloma_lof_human_gpl570_gds3578	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.478585
GSE214596,GSE214598_1_v_4_rosiglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
KMS-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.7006
GSE89767_1_v_5_cebpa_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cerebellar cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.915635
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
CA-75-HA22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.756338
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.848055
hsa-miR-3620	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
CD-20-MH57_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238446
H3K4me3_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
L-363	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.48377
SR-786	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24778
posteroventral (inferior) parietal cortex_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.20112
YY1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE261563_2_v_1_atrx_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE118794_5_v_1_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.830346
GSE201239_3_v_2_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE166920_6_v_4_adalimumab_human	RummaGEO Drug Perturbation Signatures	1.0	null
NCI-H1092	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.42741
Lung squamous cell carcinoma_LUSC_TCGA-33-4589-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_mammary epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Precancerous Conditions	CTD Gene-Disease Associations	1.0	1.20295
superior rostral gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.933504
RAD21_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM19240_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_6407_KO_TWIST1_SRP121466	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
PMC4686761-ncomms10068-s3.xlsx-S2E-MSC_up_specific-Supplementary_Data_2E_-_expression_of_up-regulated_genes_2_fold_change_specifically_in_MSC_PTEN-_-_vs_MSC_PTEN_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
FOXM1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-38-4629-01A-02R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
T84	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.13321
GSE112860_0_v_4_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AB-33-EM56_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.297017
GSE165689_0_v_1_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RAJI	CCLE Cell Line Gene Expression Profiles	-1.0	-1.48158
INO80B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23729
GSE210580_5_v_11_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RUNX1_KO_GDS1511_250_mouse_Embryos at E8.5	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
BMMC cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.883
Type IA spiral ganglion neuron_Brain_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
GSE70935_1_v_0_cyfip1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE146247_0_v_1_sirt7_human	RummaGEO Gene Perturbation Signatures	1.0	null
hippocampus (hippocampal formation)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.896091
SG in dorsolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.875374
Kidney renal papillary cell carcinoma_KIRP_TCGA-Y8-A8S1-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_astrocyte of the cerebellum_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
acquired metabolic disease	GWASdb SNP-Disease Associations	1.0	0.142156
HB-06-WU12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.384725
ASNS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06368
H3K4me3_skeletal muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE225735_0_v_4_aldosterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A6MF-01A-12R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE227592_2_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_9818_KD_GATA3_SRP103740	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.30354
GSE146074_9_v_7_ly6e_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-21-5786-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
layer II of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.34569
GSE183316,GSE183317_3_v_2_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Dynactin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.132
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A3A6-01A-11R-A22L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1319	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.0375
GSE147876,GSE147877_4_v_9_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_12133_KO_Irf8_SRP265130	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
BMS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21372
ventrolateral prefrontal cortex_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.22545
H3K4me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE236437_0_v_3_aldosterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Brain	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
NFKB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.8048
CTCF_cardiac muscle cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
r7 part of the nucleus of Roller	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28617
GSE236262_2_v_1_trim28_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.284
Learning Disorders	CTD Gene-Disease Associations	1.0	1.34576
posterior (caudal) superior temporal cortex (area 22c)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.880074
RAD21_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100566_FWM_no dementia_no TBI_82_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.26586
GSE210101,GSE210114_7_v_10_urod_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_fibroblast of skin of abdomen_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PL21	CCLE Cell Line Gene Expression Profiles	1.0	1.47105
JHOS4	CCLE Cell Line Gene CNV Profiles	1.0	1.70567
CTBP2	ENCODE Transcription Factor Targets	1.0	null
principal sensory nucleus of trigeminal nerve, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.02608
striatum_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.40234
PMC4387713-supp_gad.255984.114_Table_S5.xlsx-S5E-Down_H3K27me3_DPY30_KD-Unnamed_12_AR	Rummagene Transcription Factor Associations 2026	1.0	null
bed  nucleus of stria terminalis, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.880364
POLR2A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1435	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43025
NCI-H441	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE129244_3_v_5_lmo2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ATF1	ENCODE Transcription Factor Targets	1.0	null
POLR2A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_7_v_8_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_7975_KO_Npm1_SRP337222	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.67226
hippocampus (hippocampal formation)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.65262
GSE200099_3_v_1_honokiol_human	RummaGEO Drug Perturbation Signatures	1.0	null
primary motor cortex (area M1, area 4)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.81903
Perturb_14766_KD_HDAC5_SRP265842	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	14.9276
mRNA_SOX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
HCC1569	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.939376
Neuro D	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE68156_3_v_5_dextran_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE202434,GSE202438_9_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me2_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-6692-01A-11R-1896-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SG in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.95361
H3K9ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
brain	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K4me3_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	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	-1.39595
Perturb_3370_KO_Zc3h12a_SRP183512	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.94461
Anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.445
CTCF_fibroblast of pedal digit skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE198826,GSE198911_1_v_2_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE174498,GSE174500_0_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Bone marrow disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.091
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E18-D1_1591_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
YY1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE154767_4_v_3_adam10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE214931_2_v_5_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Stomach	GTEx Tissue Gene Expression Profiles 2023	1.0	2.35779
RCOR1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242199_9_v_11_ntrk2_human	RummaGEO Gene Perturbation Signatures	1.0	null
IFI27L1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.27846
Diamond-Blackfan anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.445
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
RCOR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE172295_0_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
u2197	HPA Cell Line Gene Expression Profiles	1.0	1.13949
SETDB1-19884255-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_cardiac muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE142210_3_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ETS1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
VD-76-SO91_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237194
H3K4me3_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
5733_NOL11_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.49195
H3K4me1_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-let-7e	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
hsa-miR-103a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
CHD1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7458_RPL30_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.53511
CORL88	CCLE Cell Line Gene CNV Profiles	-1.0	-1.45128
FOS_MCF 10A_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_5_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
CLSPN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11019
PANC 03.27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.942496
PMC11133462-41467_2024_47218_MOESM5_ESM.xlsx-IL-10_SBNO2_KD-symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
MAX_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4029819-pone.0098069.s004.xlsx-SAM_FOXA1_h_vs_FOXA1_l-Table_S3_SAM_analysis_of_FOXA1_high_versus_FOXA1_low_cases_FDR_0_01_FOXA1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE179974_3_v_4_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
r11 part of the trigeminal column	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.02807
PFKFB4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06322
GSE120336_0_v_3_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Atrophy	CTD Gene-Disease Associations	1.0	1.05461
H3K4me3_GM12865_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_NT2-D1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE210580_5_v_7_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE139540_0_v_1_menadione_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_keratinocyte_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7833686-mmc5.xlsx-e_q1en30_v1-CEBPD_CEBPD	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_endothelial cell of umbilical vein_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fat_8b	HPA Tissue Sample Gene Expression Profiles	1.0	1.47259
SMCHD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21197
Intestinal disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
Perturb_16102_KO_Map3k12_SRP157873	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-16.0324
H3K4me1_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF5	JASPAR Predicted Transcription Factor Targets	1.0	null
Perturb_9239_KD|OE_ENL|ENL_SRP074134	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.58978
POLR2A_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-HE-A5NK-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE224311_3_v_4_chaetocin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
AR-35413990-HUMAN-ARPOSCRPROSTATECANCER	ChEA Transcription Factor Targets 2022	1.0	null
Inflammatory bowel disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	2.051
OUMS-23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.970318
posterior (caudal) superior temporal cortex (area 22c)_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.07537
GSE147876,GSE147877_4_v_3_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12663032-mmc7.xlsx-Supp_T6-Supplemental_Table_6_Dual_treated_vs_vehicle_treated_MSC_top_DEGs_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
ELK1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TP53	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K4me3_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE201309_1_v_6_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Rheumatoid arthritis	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
GSE217776,GSE217829_1_v_6_sgf29_human	RummaGEO Gene Perturbation Signatures	1.0	null
Precommissural nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.05741
GSE112860_3_v_2_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SMAD2	ChEA Transcription Factor Targets	1.0	null
Primary somatosensory area, nose, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.61389
RALA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04534
GSE146982_4_v_5_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
AA-46-GL76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.240132
SW1573	CCLE Cell Line Gene Expression Profiles	1.0	2.05042
H3K4me3_cardiac mesoderm_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
Triangular nucleus of septum	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.04152
SG in rostral entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.27532
GSE139239_2_v_5_ddr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TBL1XR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFK_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LEF1-29337183-MESC-MOUSE-STEM	ChEA Transcription Factor Targets 2022	1.0	null
LS1034	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.942496
496100336_TCx_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.34909
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3436-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
inferolateral temporal cortex (area TEv, area 20)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.60867
abnormal glucose homeostasis	GWASdb SNP-Phenotype Associations	1.0	0.193536
GSE48812_0_v_5_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
IRF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE140997_2_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Nucleus of Darkschewitsch	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00947
Bed nuclei of the stria terminalis, posterior division, strial extension	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09231
Lymphoma_burkitts(Raji)	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-2.52922
GSE127261_1_v_2_ezh2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.115
GSE185519_6_v_2_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
VD-88-MW70_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.10524
Ms	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.685
VCL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.88274
GSE169697,GSE169725_0_v_5_prrx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
STAT5A	ENCODE Transcription Factor Targets	1.0	null
Perturb_7461_KO_SETD2_SRP125695	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.33585
16872506-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
TCF12_ECC-1_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	1.53217
CENPK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.09777
GSE146840,GSE146842_0_v_2_qrich1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-8_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A703-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE140322_0_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CF-50-QK79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.290579
GSE193258,GSE193259_9_v_12_osimertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
CHD1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE140651,GSE140653_2_v_4_med1_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K9ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NANOG-16153702-HESC-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
CUX1	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_Caco-2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_K562_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO 741	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08837
posterior (caudal) superior temporal cortex (area 22c)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01151
H3K4me3_NB4_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-E1-A7YQ-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
dorsolateral TG part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.64025
GSE153341_2_v_3_atf3_mouse	RummaGEO Gene Perturbation Signatures	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	-1.0213
Nr1h3::Rxra	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	23.937
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
primary auditory cortex (core)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.844381
PMC10037107-JEM_20221755_TableS6.docx-0-IL4-p_E382Q-STAT6_targets_in_Jurkats_3_STAT6	Rummagene Transcription Factor Associations 2026	1.0	null
posterior orbital gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.13839
SKMEL1	CCLE Cell Line Gene Expression Profiles	1.0	2.20288
Inflammatory bowel disease 3	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.037
GSE227592_6_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
outer CP in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.952063
dentate gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.43336
Diabetes Mellitus	CTD Gene-Disease Associations	1.0	1.18948
disease	GWASdb SNP-Disease Associations	1.0	0.023979
GSE193685_2_v_3_il11_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_cardiac mesoderm_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-UY-A8OC-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-548w	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
Perturb_4408_OE_KRas_SRP187955	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE186810,GSE186813_3_v_1_furin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
core part of DTg	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.04341
H3K27ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_11923_OE_JMJD3_SRP110517	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE226091,GSE226092_3_v_4_sall1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
QA-58-CX23_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.211256
RBBP5	ENCODE Transcription Factor Targets	1.0	null
EE-98-PF86_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.207778
POLR2A_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CL-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.39302
SPPL2A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06208
SMSCTR	DepMap CRISPR Gene Dependency	1.0	2.04472
CTCF_GM12870_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
C11orf96	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11548
GSE89767_7_v_5_cebpa_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MAX_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12867_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-D3-A3C1-06A-12R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CUX1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12518476-10067_2025_7574_MOESM8_ESM.xlsx-Sheet1-Up_regulated_DEGs_of_KD_AR	Rummagene Transcription Factor Associations 2026	1.0	null
SIN3A_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral hemisphere of cerebellum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.04376
Acute Myeloid Leukemia_LAML_TCGA-AB-2897-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cloning	GeneRIF Biological Term Annotations	1.0	null
GSE169590_6_v_5_rptor_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
THAP1	ENCODE Transcription Factor Targets	1.0	null
PMC8046804-41467_2021_22478_MOESM11_ESM.xlsx-Del_AA-TCGA-Unnamed_31_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
EVX1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12982
CTCF_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1ZS-06A-12R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_fibroblast of lung_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMC3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_cardiac mesoderm_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RMC-6236_SW48	Tahoe Therapeutics Tahoe 100M Perturbation Atlas	1.0	0.0106957
Bladder Urothelial Carcinoma_BLCA_TCGA-BL-A5ZZ-01A-31R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
WB-48-EF24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.279059
MAX_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
binding	GO Molecular Function Annotations 2015	1.0	null
Primary somatosensory area, barrel field, layer 4	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.53403
GATA2_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2135	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.83554
POU5F1-16153702-HESC-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
Perturb_6892_KO_KDM3A_SRP128505	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-19.3979
Primary somatosensory area, barrel field, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.88359
ZEB1	ENCODE Transcription Factor Targets	1.0	null
GSE166004_3_v_2_pld1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE111102,GSE111105_1_v_5_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4842-01A-02R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_GM12867_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
outer CP in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.871817
GSE227592_10_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mediodorsal nucleus of thalamus_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.40825
YY1_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC630	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23948
CD-16-KY17_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.284339
superficial stratum of r10Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.7971
Adipocyte	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	2.2603
GSE207787_1_v_2_pdha1_human	RummaGEO Gene Perturbation Signatures	1.0	null
MDST8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42849
ADAM11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.89348
Primary somatosensory area, barrel field	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.08169
GSE144346_0_v_1_mettl5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE229671,GSE229673_3_v_1_yrdc_human	RummaGEO Gene Perturbation Signatures	1.0	null
KDM1A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE74251_0_v_1_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
superficial stratum of r4Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.06289
BD-49-MD69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.14926
RPAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.78031
H3K4me3_HEK293_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE89018_12_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE191015_0_v_3_gsdmb_human	RummaGEO Gene Perturbation Signatures	1.0	null
MAX_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBL1XR1	ENCODE Transcription Factor Targets	1.0	null
GSE190316,GSE190324_1_v_9_rbm4_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE217363_4_v_1_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03937
HCC1171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08121
PMC9288051-13046_2022_2428_MOESM12_ESM.xlsx-HL-60-genes_bound_by_LYL1_at_its_promoter_regions_in_AML_cell_line_HL-60_LYL1	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Dorsal nucleus raphe	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.49007
Posterolateral visual area, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.60518
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02391
Perturb_11590_OE_OSKM_SRP099842	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-10.0513
cerebellar cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.46086
TCF12	ENCODE Transcription Factor Targets	1.0	null
posteroventral (inferior) parietal cortex_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.2331
Anteroventral periventricular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.45087
CUX1-19635798-MULTIPLE HUMAN CANCER CELL TYPES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
7427_RPF2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.06991
periventricular stratum of Str	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.40163
dorsal thalamus_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09726
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-A4C7-01A-11R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_astrocyte of the spinal cord_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
TAL1_G1E-ER4_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TM-A84C-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_HepG2_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-34-5234-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
layer II of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.41602
MYBL2_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37583
LOX-IMVI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.25891
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-5679-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-D3-A51N-06A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC10082046-41467_2023_37049_MOESM6_ESM.xlsx-Sheet1-Supplementary_Data_3_Genes_downregulated_in_ASPS-KY_cells_by_ASPSCR1-TFE3_knockdown_TFE3	Rummagene Transcription Factor Associations 2026	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QT-A7U0-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE179974_3_v_1_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CC-04-WK34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.256641
GSE234289_5_v_2_rfx6_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEP152	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1692
hsa-miR-16	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
KDM4A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVCAR4	CCLE Cell Line Gene CNV Profiles	1.0	1.72828
PAX5	ENCODE Transcription Factor Targets	1.0	null
GATA1_megakaryocyte_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
gracile nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09167
GSE228619_0_v_1_cdh11_human	RummaGEO Gene Perturbation Signatures	1.0	null
arcuate nucleus of medulla, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.13728
TEAD4_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_5431_KD_IGFBP3_SRP377970	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-10.6292
GSE167546_1_v_2_atrx_human	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	1.47678
H3K4me1_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE147876,GSE147877_4_v_7_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NEPRO	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45848
GSE227592_6_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
primary motor cortex (area M1, area 4)_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.90325
TRIM28_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4821-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Myelodysplastic syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.414
POLR2AphosphoS5_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE223008_0_v_2_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_GM12875_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TMEM140	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25324
Perturb_15368_KO_AK2_SRP326644	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.97856
CTCF_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Heart Defects, Congenital	CTD Gene-Disease Associations	1.0	1.06625
Perturb_10637_KO_Sip1_SRP028877	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Inferior colliculus, dorsal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.32485
GSE130383_2_v_3_gps2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RAD21_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAL1_megakaryocyte_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE196699_7_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.040405
GSE103068_5_v_4_volasertib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
orbital frontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.58122
Rectum adenocarcinoma_READ_TCGA-EI-6882-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
fat_x1.V2	HPA Tissue Sample Gene Expression Profiles	1.0	2.23296
H2AFZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Posterolateral visual area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.38335
gastrointestinal tract	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE144745_0_v_1_mettl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
HCC33	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.935391
Perturb_14532_KO_Ptf1a/Nr5a2_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
primary motor cortex (area M1, area 4)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.911194
A-CA-04-2009(H1N1)_36Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.58163
RBM17	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04549
CEBPB_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE160817_5_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2AphosphoS5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DMS 454	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.825395
EOMES-20176728-TROPHOBLAST STEM CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE202434,GSE202438_10_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-4_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
IGROV-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.860347
H3K4me3_cardiac mesoderm_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RFX5	ENCODE Transcription Factor Targets	1.0	null
Perturb_3221_OE_Csf1_SRP265786	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.21872
choroid plexus of the lateral ventricle	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	3.26578
internal granular layer of CbVCx	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.06686
CTCF_kidney epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mRNA_SFPI1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
PAX5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Megakaryocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.57
Ovarian surface epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.008
Perturb_4000_OE_LIN28A_SRP096196	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.58646
REST_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
outer CP in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.2876
r11 alar plate	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.45503
NKX2-4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.3661
TBC1D20	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34381
GSE142210_4_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7521_RPS29_P1	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.68062
POLR2A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETV2::FIGLA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.0966
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_Jurkat_LPS_vs_DC_JK-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
SNU349	CCLE Cell Line Gene CNV Profiles	1.0	2.29816
Arthritis	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
hsa-miR-4780	TargetScan Predicted Conserved microRNA Targets	1.0	0.828473
GSE166294_0_v_1_etv5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE185519_4_v_2_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
thyroid	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.60876
KLF4	ChEA Transcription Factor Targets	1.0	null
DU4475	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.16267
Fetal_Brain_Female	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-2.67262
Perturb_13248_OE_Med24_SRP201000	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Perturb_16101_KO_Map3k12_SRP157873	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.31152
GSE103068_0_v_1_volasertib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GRB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1714
PRKCZ_KO_GDS4310_293_mouse_heart	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
7099_RAN_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.09864
GSE75209,GSE75212_0_v_1_halofuginone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
CD-05-PU90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.553439
Lung adenocarcinoma_LUAD_TCGA-38-4632-11A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YY1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89018_1_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ZC3H12A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1508
ZC3H11A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTF2F1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20371
FGFR3_KD_GDS4454_78_human_RT112	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Kidney Diseases	CTD Gene-Disease Associations	1.0	1.02783
HUH7	DepMap CRISPR Gene Dependency	1.0	2.68282
H3K27ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE172295_1_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-60-2709-11A-01R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE184884_7_v_1_gps2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE86021_1_v_3_crenolanib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE199255,GSE199356_6_v_5_pds5a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
UNC45A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28164
GSE184892_7_v_3_trehalose_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE152441,GSE152442_0_v_5_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE60837_0_v_4_bcl9_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF143_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE152441,GSE152442_0_v_3_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.909646
PMC9378714-41467_2022_31999_MOESM10_ESM.xlsx-Supplementary_Data_7-Supplementary_Data_7_Collation_of_genes_possible_regulated_or_co-expressed_with_ELF5_ELF5	Rummagene Transcription Factor Associations 2026	1.0	null
trochlear nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.28244
outer portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.849178
HDAC2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_MCF-7_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE232624_4_v_5_ethanol_human	RummaGEO Drug Perturbation Signatures	1.0	null
547_ARRB2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.10541
MYC_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-let-7b	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.41293
GSE200673,GSE200691_1_v_5_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE215351,GSE215794_4_v_3_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
superficial stratum of r2Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.33201
GSE210101,GSE210114_2_v_3_urod_human	RummaGEO Gene Perturbation Signatures	1.0	null
RFX5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.7239
eGFP-GATA2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TUHR14TKB	CCLE Cell Line Gene CNV Profiles	1.0	2.67874
H2AFZ_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of villous mesenchyme_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H1930	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2589
GSE234155_7_v_1_nfix_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE114992,GSE114993_8_v_5_irf5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
LYRM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.48078
GSE146982_4_v_5_gpd1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE147876,GSE147877_4_v_11_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H1648	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00102
PMC11976269-41375_2025_2519_MOESM3_ESM.xlsx-ChIP_GATA2_Cluster_A-GeneName_GATA2	Rummagene Transcription Factor Associations 2026	1.0	null
BC-54-ON71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.301571
primary somatosensory cortex (area S1, areas 3,1,2)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.19571
HS 578T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.11699
USF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.7419
POLR2A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mRNA_GATA3_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
carbohydrate metabolism disease	GWASdb SNP-Disease Associations	1.0	0.253815
Sarcoma_SARC_TCGA-QC-A6FX-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Zfp809	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	37.9051
hsa-miR-3914	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
POLR2AphosphoS5_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_retinal pigment epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETV5::FOXO1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.2469
SRC_overexpression_277_GSE15161	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.65266
dentate nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.66556
H3K4me3_B cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ZNF263	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_epithelial cell of esophagus_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of mammary gland_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_10676_KD_MTF2_SRP105765	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE149943_2_v_0_cd8a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
deep white layer of SC	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.40266
Pheochromocytoma and Paraganglioma_PCPG_TCGA-TT-A6YP-01A-21R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE196117_1_v_0_clarithromycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
7476_RPL6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00998
H3K4me3_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE139239_1_v_5_ddr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
r8 part of inferior olive	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.85138
Lung squamous cell carcinoma_LUSC_TCGA-60-2720-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-F9-A8NY-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_WI38_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE214514_3_v_2_bmal1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE199204,GSE211619_4_v_1_glutamine_human	RummaGEO Drug Perturbation Signatures	1.0	null
OV7	DepMap CRISPR Gene Dependency	1.0	3.06353
GSE174498,GSE174500_3_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE136894_1_v_3_psen1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC10592471-NIHMS1912771-supplement-2.xlsx-NR2F1-Ind-Upregulated_NR2F1	Rummagene Transcription Factor Associations 2026	1.0	null
L3MBTL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.56515
IX	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.974678
periventricular stratum of isBI	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.08719
GSE89018_1_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE128333_4_v_0_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
UBTF	ENCODE Transcription Factor Targets	1.0	null
GSE223008_4_v_8_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Dimensional psychopathology (Arousal)	GWAS Catalog SNP-Phenotype Associations 2025	1.0	0.630103
CEBPB_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE193402_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAZ_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE154961,GSE154963_4_v_0_chd4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-4912-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_fibroblast of gingiva_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Jurkat_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Supplemental somatosensory area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.76839
CBX3	ENCODE Transcription Factor Targets	1.0	null
LB771HNC	DepMap CRISPR Gene Dependency	1.0	2.55619
orbital frontal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.23975
Perturb_15487_KD_SMARCA4_SRP218853	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.9636
KMS-12-BM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81052
2124_DDX47_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.40796
GSE226316_4_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_fibroblast of lung_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1666	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.864208
GSE214931_1_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-G7-6789-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE135030_11_v_5_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Hyperplasia	CTD Gene-Disease Associations	1.0	1.80868
molecular layer of rostral subiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.50915
GSE157036,GSE166411_3_v_1_halofuginone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE146687_2_v_3_eribulin_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAX_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EPLC-272H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.865412
GSE112860_3_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GATA1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2081	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31563
GSE128333_2_v_0_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE132948,GSE132949_0_v_5_msi2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12542114-12964_2025_2459_MOESM4_ESM.xlsx-DMOG_-_HIF1A-gene_HIF1A	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Congenital hypoplastic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.086
496100424_FWM_probable Alzheimer's disease_TBI_88_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.30273
mammillary area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.35688
CTCF_lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.970318
GSE128634,GSE128636_4_v_3_foxo1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
RERF-LC-OK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.965053
H3K4me3_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SK-MEL-31	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.837138
PMC8987207-DataSheet_1.xls-TF_targets_Fig_2A-HEB_CCRFCEM_ChIP-seq_TCF12	Rummagene Transcription Factor Associations 2026	1.0	null
X	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.66891
GSE203158_5_v_15_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
fasciola cinerea	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	3.09383
primary somatosensory cortex (area S1, areas 3,1,2)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.91126
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A3M9-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
doxorubicin_homo sapiens_gpl570_gse46493	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
H3K4me1_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC12022000-JCMM-29-e70533-s004.pdf-14-ZNF22_ZNF22	Rummagene Transcription Factor Associations 2026	1.0	null
UMPS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.83397
posterior (caudal) superior temporal cortex (area 22c)_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.04141
HOXB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.27473
H3K36me3_kidney epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE102467_1_v_2_pazopanib_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11655728-12672_2024_1562_MOESM2_ESM.xlsx-Sheet1-Hs_ESC_NANOG_targets_Boyer_NANOG	Rummagene Transcription Factor Associations 2026	1.0	null
GSE117042_1_v_3_tunicamycin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE227698_5_v_3_g0s2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
5726_NOB1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.07337
GSE169571_5_v_4_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE231720,GSE231724_2_v_0_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
cytoplasmic part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.041187
UBTF_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE118794_5_v_4_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-H7-8501-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27ac_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_11978_OE_Ifng_ERP109050	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.86012
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.35019
GSE201877_1_v_0_yap1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CardiacMyocytes	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.16253
amygdaloid complex_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09134
ME1	CCLE Cell Line Gene Expression Profiles	1.0	1.45057
GATA1_G1E-ER4_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_epithelial cell of proximal tubule_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_keratinocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE124410_3_v_4_stk40_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Increased_in_both_CSDE1_KD_hESC-hgnc_symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A5BZ-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE143643,GSE143644_4_v_5_hdac3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PFEIFFER	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.896931
GSE101546_3_v_4_setdb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SMAD3	ChEA Transcription Factor Targets	1.0	null
GSE237984_1_v_0_magi1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Primary somatosensory area, upper limb, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.80026
ATF3	ChEA Transcription Factor Targets	1.0	null
CTCF_GM12866_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
appendix	HPA Tissue Gene Expression Profiles	1.0	1.24231
Perturb_642_KD_FASTKD1_SRP299834	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.35212
GSE202434,GSE202438_8_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MZF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.5325
posterior (caudal) superior temporal cortex (area 22c)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.09256
GSE215086_5_v_0_batf_human	RummaGEO Gene Perturbation Signatures	1.0	null
mantle zone of r10Ve	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.46687
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.929246
Anterolateral visual area, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.74693
CTCF_astrocyte of the cerebellum_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE152441,GSE152442_6_v_5_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Ovary epithelium cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.94
lateral part of Med	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.141
CTCF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RA-49-ZB08_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.225245
TEAD4	ENCODE Transcription Factor Targets	1.0	null
HS-SULTAN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.51506
H3K9me1_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
DHX8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.5117
KMS12BM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.59449
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1YY-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
posteroventral (inferior) parietal cortex_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.888295
GSE244072_4_v_6_tfeb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CF-87-AS90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.518627
Folium-tuber vermis (VII), granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.83844
all	GWASdb SNP-Phenotype Associations	1.0	0.028245
7460_RPL32_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.04129
paracentral lobule, posterior part, right, bank of cingulate sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.6623
Perturb_1178_KD_CBFB_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
CTCF_LNCaP clone FGC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE157904_3_v_1_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5701-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
superficial stratum of r2BL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.12128
Kidney renal papillary cell carcinoma_KIRP_TCGA-P4-A5ED-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
adult stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.336336
GSE175787_4_v_7_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H1_Derived_Mesenchymal_Stem_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.24367
H3K4me3_cardiac fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PBX1	ChEA Transcription Factor Targets	1.0	null
GSE57871_11_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
r9 part of nucleus gracilis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.36914
mediodorsal nucleus of thalamus_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.85387
CTCF_fibroblast of upper leg skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168676_2_v_3_dach1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-6_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
Liver Neoplasms	CTD Gene-Disease Associations	1.0	1.05423
BCL11A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4161
Perturb_750_KD_UHRF1_SRP331230	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.25308
GSE142210_9_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-IB-AAUV-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-66-2734-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mammillary part of THyB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.35688
USF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2835-03A-01T-0736-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
496100346_FWM_no dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.54557
PMC10248509-Data_Sheet_6.CSV--GSE58294_DE-genes_AND_GSE66724_DE-Genes_AND_GSE22255_DE-Genes_NOT_Autophagy_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
Sarcoma_SARC_TCGA-Z4-A9VC-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SUZ12	ChEA Transcription Factor Targets	1.0	null
Central nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Posterolateral visual area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.55579
H3K4me3_fibroblast of foreskin _hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A5C1-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_3_SED-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
corpus callosum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.05259
transient Purkinje cell clusters	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.10791
H3K27me3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GRANTA-519	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.62811
GSE180200,GSE180201_2_v_0_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
dorsorostral division of MFC (area 32)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.41409
GSE125862_2_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_kidney epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE191021_1_v_0_nono_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8143797-elife-62857-fig3-data2.xlsx-DEgenes_SW872_TAZ-CAMTA1_vs_EV-Gene_CAMTA1	Rummagene Transcription Factor Associations 2026	1.0	null
CL-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.05556
7501_RPS13_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.89244
GSE229344_2_v_0_cyb5r3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Erythroid progenitor cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.952
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A299-01A-21R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HIF1A_DEPLETION_GDS2760_642_human_Hypoxic MCF-7 breast cancer cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
superficial stratum of TPaA	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.21562
H3K4me3_H7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
morphine_mus musculus_gpl6246_gse17731	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Prostate adenocarcinoma_PRAD_TCGA-FC-A8O0-01A-41R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
orthologs	GeneRIF Biological Term Annotations	1.0	null
H3K9ac_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.36873
GSE107505_3_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Mesothelioma_MESO_TCGA-LK-A4O6-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_bronchial epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.01516
Pheochromocytoma and Paraganglioma_PCPG_TCGA-S7-A7WP-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KA-75-LP02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.945859
CTCF_GM12872_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAC2A	DepMap CRISPR Gene Dependency	1.0	2.56233
3573_GTF2H1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.04062
r10 part of spinal trigeminal nucleus, caudal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.93993
H3K4me3_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE166536_1_v_2_docetaxel_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC11426526-ppat.1012555.s011.xlsx-DEG_MDDC_Jurkat_LPS_vs_MDDC_JK-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-RW-A680-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K9ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Rectum adenocarcinoma_READ_TCGA-G5-6572-01A-11R-1830-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_LNCaP clone FGC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
MYC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFK_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2553_EIF3I_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.26068
GSE193993_5_v_2_sstr2_human	RummaGEO Gene Perturbation Signatures	1.0	null
HT55	DepMap CRISPR Gene Dependency	1.0	2.51784
GSE214823,GSE214824_0_v_1_crtc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
posteroventral (inferior) parietal cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.66264
GSE226091,GSE226092_0_v_4_sall1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CHD1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
HOXD12::ELK1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.118
Lung squamous cell carcinoma_LUSC_TCGA-22-4593-01A-21R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
LBP-1	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE160373_6_v_3_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Liver	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.4934
21205295-TableS1	GeneSigDB Published Gene Signatures	1.0	null
GSE195503_3_v_0_progesterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11143203-41422_2024_945_MOESM14_ESM.pdf-130-KLF6_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
H2AFZ_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
MFE-319	COSMIC Cell Line Gene Mutation Profiles	1.0	null
7523_RPS3A_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.65252
COLO741	CCLE Cell Line Gene CNV Profiles	-1.0	-1.69299
oculomotor nucleus, main part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.04341
JVM3	CCLE Cell Line Gene Expression Profiles	-1.0	-2.21732
Perturb_11416_KD_RB1_SRP271262	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
TAL1_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE153189_1_v_0_stat1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE104022_3_v_7_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1_G1E-ER4_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.13054
HT1197	DepMap CRISPR Gene Dependency	1.0	2.08046
H2AFZ_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_LNCaP clone FGC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
skeletal system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060904
Perturb_15967_KO_Tbet_SRP063567	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.12932
GSE160817_4_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	1.0	null
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.990506
TAF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE149943_1_v_3_cd8a_mouse	RummaGEO Gene Perturbation Signatures	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	3.51635
CTCF_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE184884_6_v_0_gps2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE88819_7_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
A-427	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.942496
Perturb_17408_KO_Rag2_SRP092590	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.8238
POLR2AphosphoS5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE195559_6_v_1_notch1_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC12410147-NIHMS2099518-supplement-5.xlsx-z-scores_E4DEG_DGATiLPS_vs_LPS-Z-scores_for_genes_differentially_expressed_when_comparing_DGATi_LPS_treatment_to_LPS_alone_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
megakaryoblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.184927
organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043292
TAL1_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
animal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE150134_1_v_0_fluorouracil_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCC1263	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.51263
Pancreatic adenocarcinoma_PAAD_TCGA-IB-7893-01A-11R-2204-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE232558_0_v_2_fbxl12_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6344081-elife-40364-supp5.xlsx-PLZF_peaks_H3K27Ac_unchanged-Unnamed_10_ZBTB16	Rummagene Transcription Factor Associations 2026	1.0	null
GSE247764_1_v_2_nell2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
roof plate of p2 (epithalamic roofplate)	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.61941
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.65096
CTCF_GM12868_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-18-3417-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NAMALWA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.24071
r3 roof plate	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.03858
GSE112860_9_v_8_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10123531-NIHMS1874945-supplement-Table_S6.xlsx-SOX2_BCAT_cobound_peaks-Gene_Name_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
Dorsal motor nucleus of the vagus nerve	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.24602
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E18-D3_2440_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	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	0.927026
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MEF2C_MEF2C	Rummagene Transcription Factor Associations 2026	1.0	null
Anterolateral visual area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.68842
Mr	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.794
H3K4me3_bronchial epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE182680,GSE182683_0_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Lobules IV-V, granular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.16265
primary somatosensory cortex (area S1, areas 3,1,2)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.0672
GATA1_megakaryocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_SK-N-MC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW403	DepMap CRISPR Gene Dependency	1.0	2.38695
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.30746
CTCF_astrocyte of the spinal cord_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TIA1_KO_GSE54418_266_mouse_liver	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-5169-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043624
GSE199092_2_v_0_ddx5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_GM12865_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW 982	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.36873
Posterolateral visual area, layer 6b	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.10963
GSE129858,GSE129859_1_v_3_robo1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_17525_KO_Foxp3_SRP366054	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.29564
IX, left, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.00814
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65619
SMC3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE152441,GSE152442_0_v_4_folic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_bone marrow macrophage_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_H54_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Frontal pole, layer 2/3	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.32734
GSE150669_2_v_3_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC5894239-12864_2018_4591_MOESM9_ESM.xlsx-ST12_mir_downregulated-Ensembl_ID_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
YD-49-HM53_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.507098
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
4470_KRI1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.31399
GSE211177,GSE211178_8_v_3_ets1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
r3 part of spinal trigeminal sensory column, oral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.36726
Declive (VI), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.36531
EZH2_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF382	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.604
PMC5682285-41467_2017_1744_MOESM8_ESM.xlsx-Change_in_both_CSDE1_KD_hESCs-gene_short_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
BCL11B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68551
CTCF_GM19239_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF16	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40191
Brain Lower Grade Glioma_LGG_TCGA-P5-A72U-01A-31R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE224311_3_v_0_chaetocin_human	RummaGEO Drug Perturbation Signatures	1.0	null
periventricular stratum of SC	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.98122
Retrochiasmatic area	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.73487
Connective tissue disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
GSE145639_1_v_6_adar_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.869935
RBPJ	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11575
GSE138001_2_v_3_rorb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
LF-94-HB11_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.258222
posteroventral (inferior) parietal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.52944
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE149621_0_v_1_olaparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE128076_1_v_3_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.01432
central part of VMH	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.17366
GSE178907_4_v_3_fkrp_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-A5RA-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SIN3A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE199921_1_v_0_romidepsin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MC-40-IP75_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.265404
Perturb_14723_KO_Pgr_ERP140354	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-18.3565
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POU5F1	ChEA Transcription Factor Targets	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-NA-A4R0-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAL1_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TM-A7C3-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZKSCAN1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-35-CK01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.438983
H3K4me3_fibroblast of lung_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_13005_KD_SPI1_SRP090090	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
Medial amygdalar nucleus, anteroventral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.11519
H3K4me3_H7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEx Prostate 20-29 vs 60-69	GTEx Tissue-Specific Aging Signatures	1.0	5.04979
GSE152432_1_v_4_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Basolateral amygdalar nucleus, anterior part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.33901
EZH2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Magnocellular reticular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08878
7466_RPL36_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.3889
PMC6879454-Data_Sheet_1.xlsx-AA_in_vitro-Unnamed_4_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
KG-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.872339
HCC78	DepMap CRISPR Gene Dependency	1.0	2.55813
CTCF_GM12868_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9564215-pnas.2203480119.sd02.xlsx-OVCAR-5_SCD_KD_cultured_in_low-hgnc_symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
CC-30-TN36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.246638
primary somatosensory cortex (area S1, areas 3,1,2)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.847292
PMC7857731-elife-63093-supp1.xlsx-DEG_MITF-X6vsEV-SkMEL28-Unnamed_1_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_astrocyte of the spinal cord_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-63-7022-01A-11R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NFIC::TLX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.75
H3K4me3_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3673	TargetScan Predicted Conserved microRNA Targets	1.0	0.17031
GSE149943_1_v_0_cd8a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM13977_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-50-5044-01A-21R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE242367_1_v_0_dpp9_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE227634,GSE228381_0_v_5_arid1a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE125014_6_v_3_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE172494_3_v_1_nicotinamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2AphosphoS5_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_TRIM28_19339689	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A6JO-01B-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CC-17-JL38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.15584
Head and Neck squamous cell carcinoma_HNSC_TCGA-DQ-5630-01A-01R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE201239_3_v_4_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H889	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.970318
hsa-miR-3177-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
UT7	CCLE Cell Line Gene Expression Profiles	1.0	1.37498
H3K27me3_cardiac mesoderm_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE138468_3_v_6_dyrk1a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE132948,GSE132949_4_v_5_msi2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H716	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.12067
primary auditory cortex (core)_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.44544
GSE225735_1_v_4_aldosterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SW 1573	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.04721
GSE182680,GSE182683_7_v_13_dexamethasone_human	RummaGEO Drug Perturbation Signatures	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	1.14549
hemorrhagic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.29118
KDM4A	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_astrocyte of the cerebellum_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12873_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE184902_4_v_1_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE100863,GSE100864_2_v_1_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EP300_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-69-7760-01A-11R-2170-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE149943_2_v_3_cd8a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
REL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5294
CTCF_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A3UD-01A-11R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YY1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147056_0_v_1_actl6b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-FR-A7U9-06A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242199_6_v_3_ntrk2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE100316_7_v_1_mtor_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE174701_1_v_6_maml3_human	RummaGEO Gene Perturbation Signatures	1.0	null
SW 837	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43949
H3K4me3_WI38_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
superficial stratum of the IG	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27996
POLR2AphosphoS5_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10592471-NIHMS1912771-supplement-7.xlsx-D-HEp3-Enh_vs_AA-up_genes-AA_up_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE48812_8_v_5_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-8106-01A-11R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
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	-1.49376
Pancreas	GTEx Tissue Gene Expression Profiles 2023	1.0	3.77807
HCC1588	CCLE Cell Line Gene Expression Profiles	1.0	1.38822
PRIM2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.19199
GSE113106_2_v_5_dnm2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NR2F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9002
GSE133213_9_v_3_znrf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE153867_6_v_3_olaparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE202434,GSE202438_9_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE180200,GSE180201_12_v_9_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135352_0_v_4_napabucasin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC10322668-Table_7.xlsx-DE_genes_at_early_infection-List_of_de-regulated_genes_at_early_interaction_time_point_of_Dm28c_T_cruzi_THP1_infected_cells_From_Libisch_2020_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE122425_1_v_0_nsun2_human	RummaGEO Gene Perturbation Signatures	1.0	null
OVTOKO	DepMap CRISPR Gene Dependency	1.0	2.07865
GSE202434,GSE202438_13_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE229580_2_v_1_creb1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE182921_0_v_1_slit2_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
temporal pole, right, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.15018
Lung squamous cell carcinoma_LUSC_TCGA-37-3789-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE151494_8_v_3_nrp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GR-M	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.79487
GSE223008_0_v_8_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.232523
intermediate stratum of TSPaA	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.37136
JIYOYE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.16436
Adipose - Subcutaneous	GTEx Tissue Gene Expression Profiles 2023	1.0	3.68847
CTCF_SK-N-SH_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SARS-CoV_48Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.58334
KMS-12-PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.09606
Six4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	31.9611
Perturb_7999_KO_Wwtr1/Yap1_SRP265287	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.24636
NMCG1	CCLE Cell Line Gene Expression Profiles	1.0	1.35632
ZFP36_Deficiency_GDS2456_707_mouse_Fibroblasts	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
hsa-miR-4728-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
MAZ_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE220914_1_v_0_zdhhc2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Carcinoma, Hepatocellular	CTD Gene-Disease Associations	1.0	1.02858
DAP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12505
CTCF_fibroblast of villous mesenchyme_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE146156_2_v_3_tagap_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100527_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	-2.46407
CTCF_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNU601	CCLE Cell Line Gene Expression Profiles	-1.0	-1.53409
H3K4me3_epithelial cell of proximal tubule_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_1172_KD_CBFB_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
hsa-miR-4685-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.115091
Brain Lower Grade Glioma_LGG_TCGA-DU-8161-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE182179_2_v_3_kdsr_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE228162_2_v_5_nr2f6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Whole body	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE130715_2_v_3_budesonide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7102-01A-11R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_12658_KD_NFE2L2_SRP242008	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
CTCF_fibroblast of lung_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPIL4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.46428
H3K27ac_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DAN-G	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13714
anterior (rostral) cingulate (medial prefrontal) cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.827621
KDM1A	ENCODE Transcription Factor Targets	1.0	null
ECC10	CCLE Cell Line Gene CNV Profiles	-1.0	-1.90418
SUZ12_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFKB2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	45.1645
Perturb_6895_KO_TP53_SRP272626	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.8341
periventricular stratum of p1B	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.02961
TEAD4_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE233679_5_v_13_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE113106_3_v_5_dnm2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE94849_1_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MED7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.41885
CTCF_GM12865_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
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
GSE113734_1_v_0_qprt_human	RummaGEO Gene Perturbation Signatures	1.0	null
8663_TAF3_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.05268
GSE214823,GSE214824_6_v_2_crtc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_endothelial cell of umbilical vein_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
MAX_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lymphoma_burkitts(Daudi)	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.22715
TAF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
periventricular stratum of r8BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.3296
CTCF_GM12870_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE180200,GSE180201_5_v_1_qpctl_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
rosiglitazone_mus musculus_gpl7202_gse19896	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE103372_0_v_3_smad1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SUM52PE	DepMap CRISPR Gene Dependency	1.0	2.55778
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
GSE210101,GSE210114_2_v_10_urod_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_5144_KO_H3f3a_ERP109384	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.59476
Kidney Chromophobe_KICH_TCGA-KN-8427-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE112860_0_v_8_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12186250-NIHMS2085662-supplement-3.xlsx-4111_TEAD4_peaks-Nearest_Ensembl_TEAD4	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_10_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
RFX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE224311_3_v_1_chaetocin_human	RummaGEO Drug Perturbation Signatures	1.0	null
hippocampus (hippocampal formation)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.42729
parataenial nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.59271
NCI-H2810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.25697
GSE119345_2_v_3_bexarotene_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ATM_knockout_75_GSE23116	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.36791
anterior (rostral) cingulate (medial prefrontal) cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.6694
MM.1S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.03518
Gli2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	32.301
ventrolateral prefrontal cortex_35 pcw_F_12295	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.12259
BCLAF1	ENCODE Transcription Factor Targets	1.0	null
GSE168807_0_v_7_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE188570,GSE188571_5_v_2_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC8567138-Table_2.xlsx-Sheet1-IGFBP5_AND_IGFBP7_NOT_IGFBP3_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_2174_KO_Nlrp3_SRP366634	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.08889
outer CP in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.850495
periventricular stratum of JcPL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01826
Sarcoma_SARC_TCGA-DX-A3LT-01A-12R-A21T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE153867_6_v_8_olaparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE184475_1_v_0_il21_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Spinal nucleus of the trigeminal, oral part, ventrolateral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.04066
Neuroblastoma cell	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE96991,GSE97117_3_v_1_il11_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9996951-40659_2023_417_MOESM3_ESM.xlsx-Osteo_vs_MSC_Array2_hypo_er_txt-1_UCSC_NAME_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
TAL1_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
6841_PSMA1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.45138
CTCF_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Subrhabdomeral cisterna	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.614
Brain Lower Grade Glioma_LGG_TCGA-P5-A5F6-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EP300_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8987207-DataSheet_1.xls-TF_targets_Fig_2A-HEB_Jurkat_ChIP-seq_TCF12	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MCF 10A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.51145
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A7IJ-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE48812_7_v_5_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
USF2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCLAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_epithelial cell of esophagus_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FD-20-OG99_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.372735
PMC11214527-mmc5.xlsx-TP53-gene_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
MYBL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE248770_0_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BICR 10	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.904296
etoposide_mus musculus_gpl6887_gse33626	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GSE221327_6_v_9_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10081
Lung adenocarcinoma_LUAD_TCGA-64-5775-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-IB-AAUS-01A-12R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE133087_1_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
CHURC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04583
H2AFZ_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE99875_2_v_0_everolimus_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF143	ENCODE Transcription Factor Targets	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-P3-A6T2-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Primary somatosensory area, nose	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.65635
GSE242199_6_v_11_ntrk2_human	RummaGEO Gene Perturbation Signatures	1.0	null
NDUFB8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02249
ZSCAN2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05776
Adrenal gland cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.941
H3K27me3_mononuclear cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE94849_1_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RUNX3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_mammary epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
lateral SC part of the periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	2.06606
NCI-H1792	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.56144
PMC8323949-pcbi.1009228.s007.xlsx-X17-Unnamed_0_ZNF717	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_cardiac mesoderm_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_8044_KD_GIPC_SRP264915	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.9682
u138mg	HPA Cell Line Gene Expression Profiles	1.0	0.896431
H3K4me3_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DOHH-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.833762
GSE256181_1_v_0_etv2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5469-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE138863_3_v_0_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE142210_2_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GATA1_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_cardiac fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A3OQ-01A-32R-A220-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MDAMB157	CCLE Cell Line Gene CNV Profiles	1.0	1.98876
2067_DCLRE1B_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.0657
GSE228181_4_v_5_idh1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE162087_0_v_1_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
FOXH1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.8884
H3K4me3_GM06990_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE188870,GSE188871_0_v_3_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC4149371-pone.0105180.s010.xls-SOX2-GENE_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
RAB7A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1343
mast cells	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.46784
hippocampus (hippocampal formation)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.8026
lateral IC periaqueductal gray	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.42994
GSE221577_4_v_5_pik3r1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE87617_1_v_0_ascl1_human	RummaGEO Gene Perturbation Signatures	1.0	null
TAL1_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
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	-0.841425
GSE211177,GSE211178_0_v_11_ets1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE228894_3_v_2_rnmt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100631_PCx_dementia_TBI_77_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.16253
GSE227634,GSE228381_0_v_7_arid1a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02391
GSE137954_4_v_2_smyd3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CCNT2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9me1_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE103068_0_v_4_volasertib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE113385_0_v_1_six1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SUIT2	DepMap CRISPR Gene Dependency	1.0	2.24366
GSE147626_2_v_0_glutathione_human	RummaGEO Drug Perturbation Signatures	1.0	null
III, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.22544
Norwalk Virus_HG23_19515767_GSE15520	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.40621
H3K27ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
8651_TAF10_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.12349
10702_ZNHIT6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.2658
GSE145311_0_v_2_glutathione_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MDS-92 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.526
H3K4me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZNF768	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	37.7584
H3K27ac_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
COV413B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.77545
Brain Lower Grade Glioma_LGG_TCGA-HT-A617-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAL1_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-let-7f	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
SOX2-20726797-SW620-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Prespliceosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.216
H2AFZ_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Digestive gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
POU2F2	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K4me3_HEK293_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE201309_4_v_8_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE229978_4_v_7_morphine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-VN-A88I-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE161846,GSE161849_4_v_0_smarca4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_kidney epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
MAX_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TMEM123	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.44755
Temporal association areas, layer 6a	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-2.03327
LOVO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.19203
Prostate adenocarcinoma_PRAD_TCGA-EJ-7783-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ELF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cyclin D1-CDK4 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.063
NELFE	ENCODE Transcription Factor Targets	1.0	null
ELF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
C3A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.853892
H3K4me3_GM12878_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE242647_2_v_3_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE223008_7_v_1_calhm6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168602,GSE168604_2_v_1_selumetinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
AU565	CCLE Cell Line Gene CNV Profiles	1.0	1.61789
RER1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0097
MAZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4434	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
molecular_function	GO Molecular Function Annotations 2015	1.0	null
CP in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.14573
Perturb_1160_KD_CELSR2_SRP149837	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-11.7124
Perturb_8979_KD_MEOX2_SRP358321	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-14.3611
CTCF_GM20000_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2937-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE201309_5_v_3_matrine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Cytosolic ribosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.182
GSE218356_1_v_0_cited1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
intestine	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PMC7673140-41467_2020_19575_MOESM4_ESM.xlsx-Data_S1d-List_of_2302_of_genes_differentially_regulated_by_SOX2_FDR_0_1_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
PTPN23	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.72543
NFKB1-27076634-BEAS2B-HUMAN-LUNG-INFLAMMATION	ChEA Transcription Factor Targets 2022	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-6767-01A-11R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
7519_RPS28_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.11912
Lung adenocarcinoma_LUAD_TCGA-64-1676-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AU565	DepMap CRISPR Gene Dependency	1.0	2.95855
GSE232631_5_v_2_brca2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE180200,GSE180201_2_v_9_qpctl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
amygdaloid complex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.2221
Small_Intestine-cd4-positive, alpha-beta t cell	Tabula Sapiens Gene-Cell Associations	1.0	9.07226
GSE223008_9_v_12_calhm6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of pedal digit skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
2526_EIF1AD_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.7918
thrombocytosis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.706351
5470_NAT10_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	2.16298
GSE214823,GSE214824_5_v_1_crtc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_BJ_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-AL-7173-01A-11R-2139-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-605	TargetScan Predicted Conserved microRNA Targets	1.0	1.45615
H3K4me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H2AFZ_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GM12878	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.20067
hsa-miR-107	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
MYC_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KXD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0048
PMC5263239-mmc2.xls-Zhu_2016_-_MLL-AF4-Non-spreading_targets_gene_names_262_unique_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
HMGN3	ENCODE Transcription Factor Targets	1.0	null
GSE57397,GSE57399_1_v_0_fbxw7_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A19O-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAL1	ChEA Transcription Factor Targets	1.0	null
ME-54-JY76_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.21926
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828072
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-10_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
GSE210580_4_v_7_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_cardiac fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC2866657-pone.0010547.s003.xls-ESE3_corr-Genes_correlated_anticorrelated_to_ESE3_EHF	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE185519_6_v_7_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
vitamin c_homo sapiens_gpl570_gse11919	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE130383_2_v_0_gps2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE107505_0_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FE-56-PV35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.25197
head	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE182680,GSE182683_10_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
BE-27-RQ61_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.326439
I-II	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.22473
central lateral nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.23071
inferolateral temporal cortex (area TEv, area 20)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.46862
diabetes mellitus	GWASdb SNP-Phenotype Associations	1.0	0.271363
POLR2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAJI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.18043
PMC11046918-12967_2024_5211_MOESM4_ESM.xlsx-F_HT1080_FUS-DDIT3_regulated-Table_S2_Regulated_genes_between_scaffold-cultured_and_monolayer-cultured_cells_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
7437_RPL13_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.12028
VZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.45197
GSE119603_1_v_0_oxaliplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC9124206-41419_2022_4940_MOESM8_ESM.xlsx-DEG_PACA-US-ID_PTF1A	Rummagene Transcription Factor Associations 2026	1.0	null
Penis_Foreskin_Fibroblast_Primary_Cells_skin02	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.24535
CTCF_fibroblast of the aortic adventitia_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-4888-01A-01R-1305-07	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
Brain Lower Grade Glioma_LGG_TCGA-HT-7691-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE95077_1_v_0_amiloride_human	RummaGEO Drug Perturbation Signatures	-1.0	null
myeloid progenitor cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.107631
MAX_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10153265-media-3.xlsx-BENPORATH_NANOG_TARGETS_v2023_1-STANDARD_NAME_NANOG	Rummagene Transcription Factor Associations 2026	1.0	null
ESRRB	ChEA Transcription Factor Targets	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HI-7170-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE184892_7_v_5_trehalose_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_6477_KO_SETD6_SRP341895	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE211177,GSE211178_4_v_3_ets1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6713698-109_2019_1809_MOESM2_ESM.xlsx-AR-PCOS-Gene_List_AR	Rummagene Transcription Factor Associations 2026	1.0	null
medial subdivision of area 10	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.847219
cortex of cerebellar vermis	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01011
STAT3_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 936.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.3248
GSE120336_0_v_2_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
TEAD4_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE97352_3_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_12659_KD_NFE2L2_SRP242008	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
NRF1	ENCODE Transcription Factor Targets	1.0	null
GSE171311_0_v_1_ellagic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
MSN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24675
marrow cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.297089
7515_RPS26_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.99616
Head and Neck squamous cell carcinoma_HNSC_TCGA-BB-A5HU-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
abnormality of carbohydrate metabolism/homeostasis	GWASdb SNP-Phenotype Associations	1.0	0.177482
superficial stratum of OB	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.08106
GSE228181_4_v_1_idh1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
E2F6_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_T47D_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_WI38_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4212256-mmc5.xlsx-FLI1_log2_results-MIR622_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.09557
PHF8	ENCODE Transcription Factor Targets	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MU-A8JM-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_14969_KD_Phf23_SRP248452	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.19179
PMC6420765-12864_2019_5550_MOESM4_ESM.xlsx-R_D4_vs_D9-Row_names_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-T2-A6WX-01A-12R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE199204,GSE211619_4_v_7_glutamine_human	RummaGEO Drug Perturbation Signatures	1.0	null
membrane part	GO Cellular Component Annotations 2015	1.0	null
Perturb_4583_KO_Socs3_SRP074146	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	9.59311
SIN3A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-P4-A5E8-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE139239_2_v_6_ddr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-68-A59I-01A-11R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_SK-N-MC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
superficial stratum of r3Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.36726
H3K27ac_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HEC-1-A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.25128
FD-29-MM50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.458451
LS 174T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.870357
7540_RPSA_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.22341
Perturb_6497_KD_PIEZO1_SRP392492	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE193993_5_v_7_sstr2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MDAMB415	CCLE Cell Line Gene CNV Profiles	1.0	1.43402
9366_TSR2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.22847
POLR2AphosphoS5_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE233679_14_v_9_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GC-A3RC-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_4899_KD_TP53_SRP067400	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
FOXO1::ELK3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.9369
PMC11627398-pone.0315219.s005.xlsx-MTF1-symbol_MTF1	Rummagene Transcription Factor Associations 2026	1.0	null
ANKRD28	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0803
Median preoptic nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.06923
PMC4782046-supp_30.5.508_TableS2.xlsx-TAL1_UTX-co-bound_genes-Unnamed_4_TAL1	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_GM12871_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14516_KO_Kras_SRP311976	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.11109
GSE210101,GSE210114_8_v_10_urod_human	RummaGEO Gene Perturbation Signatures	1.0	null
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_WI38_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-202	TargetScan Predicted Conserved microRNA Targets	1.0	0.265648
BACH1	ENCODE Transcription Factor Targets	1.0	null
GSE226249_2_v_8_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
hsa-miR-3619-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
GSE164874_5_v_10_prednisolone_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC6299095-41389_2018_108_MOESM4_ESM.xlsx-T47D-TRPS1_peak-gene_symbol_TRPS1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE227592_8_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
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	2.07326
large intestine	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
colon	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
7512_RPS23_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.43549
VIIIB, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.907032
RAD21_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAL1-20566737-PRIMARY FETAL LIVER ERYTHROID CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
yy1_22711985_skeletal_muscle_lof_mouse_gpl8321_gse39009	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.135703
GSE228894_0_v_1_rnmt_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EA-39-YN88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.967341
primary motor cortex (area M1, area 4)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.973631
FEZF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0078
POLR2A_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FTCD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.20012
ELK1	JASPAR Predicted Transcription Factor Targets	1.0	null
pseudocumene	CTD Gene-Chemical Interactions	1.0	null
IC-80-CT90_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.262402
GSE226770_1_v_6_atrx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CEBPB_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE95077_1_v_2_amiloride_human	RummaGEO Drug Perturbation Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2M5-06A-12R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
central nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.05714
SNU-5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828072
GSE94849_7_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
VZ in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.48753
outer CP in frontal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.996695
stratum pyramidale of rostral CA2	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.87493
GSE102675_3_v_0_atf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TA-34-CK62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.606632
CTCF_brain microvascular endothelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89767_4_v_5_cebpa_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
inner SZ in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.23498
Perturb_6607_KO_KEAP1_ERP124775	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.17818
GSE89767_6_v_5_cebpa_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM12878_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1_megakaryocyte_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE218580_1_v_0_fentanyl_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE112860_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Crohn's disease	GWAS Catalog SNP-Phenotype Associations 2025	1.0	1.8699
GSE158969_1_v_2_trastuzumab_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_13011_KO_ALOX5_SRP367905	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.83634
NURR1	MotifMap Predicted Transcription Factor Targets	1.0	null
KYSE220	DepMap CRISPR Gene Dependency	1.0	2.68771
GSE118548_1_v_3_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
D458	DepMap CRISPR Gene Dependency	1.0	2.51513
CTCF_GM12869_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_BE2C_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE247764_4_v_2_nell2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Neoplasms	CTD Gene-Disease Associations	1.0	1.18259
GSE180147_0_v_1_itga5_human	RummaGEO Gene Perturbation Signatures	1.0	null
KYSE-270	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18732
MKN-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02525
H3K4me3_keratinocyte_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_9237_KD_ENL_SRP074134	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE148263_6_v_0_trim3_human	RummaGEO Gene Perturbation Signatures	1.0	null
ACAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.65522
H3K4me1_CD4+ CD25- CD45RO+ Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE210580_0_v_1_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cerebellar cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.972777
GSE199874_3_v_5_gabpb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE148066,GSE157787_8_v_10_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE225656_0_v_1_tsc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ATF3-23680149-GBM1-GSC-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
IGR39	CCLE Cell Line Gene CNV Profiles	1.0	1.42815
TAL1_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142210_2_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RCOR1	ENCODE Transcription Factor Targets	1.0	null
EP300_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE48812_9_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
cerebellar cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.98779
RUNX3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
type ii diabetes mellitus	GWASdb SNP-Phenotype Associations	1.0	0.497193
H3K27ac_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cellular_component	GO Cellular Component Annotations 2015	1.0	null
NR3C1	ChEA Transcription Factor Targets	1.0	null
ChIP_SETDB1_19884255	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
NRF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PAX5_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE196117_1_v_8_clarithromycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
WC-16-IR43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.214506
CTCF_HCT116_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
WRNIP1	ENCODE Transcription Factor Targets	1.0	null
Adrenocortical carcinoma_ACC_TCGA-OR-A5KU-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE193993_5_v_3_sstr2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE160817_2_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	1.0	null
primary motor cortex (area M1, area 4)_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.903195
CTCF_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE171269_1_v_0_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2AphosphoS5_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE185519_4_v_7_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
USF2	ENCODE Transcription Factor Targets	1.0	null
efo21	HPA Cell Line Gene Expression Profiles	-1.0	-1.702
GSE203158_12_v_15_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H226 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.806
GSE152432_6_v_2_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE136238_1_v_0_ebf1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MXI1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELK1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168401_2_v_0_harmine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Weight Loss	CTD Gene-Disease Associations	1.0	1.18326
POLR2A_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A39W-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_WERI-Rb-1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
dorsolateral prefrontal cortex_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.24953
primary visual cortex (striate cortex, area V1/17)_26 pcw_F_12949	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.34902
Aplastic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.027
C80	DepMap CRISPR Gene Dependency	1.0	2.22342
CTCF_GM10266_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRIM28_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SR-786	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.4155
dorsolateral prefrontal cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.27335
Perturb_15350_KO_Pgr_ERP140354	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Lung squamous cell carcinoma_LUSC_TCGA-66-2788-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOSL1	ENCODE Transcription Factor Targets	1.0	null
PMC6744561-41467_2019_12125_MOESM8_ESM.xlsx-SEs_gained_in_MCF10DCIS-TCF7_ce-overlap_genes_TCF7	Rummagene Transcription Factor Associations 2026	1.0	null
GSE142684_4_v_5_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE118490_1_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Fibrosis	CTD Gene-Disease Associations	1.0	1.23806
CTCF_GM12869_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
HCT116	DepMap CRISPR Gene Dependency	1.0	2.52505
H3K27me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE174498,GSE174500_5_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_retinal pigment epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE201309_1_v_0_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE81803,GSE81912_3_v_5_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE140322_3_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE182680,GSE182683_0_v_2_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Gigantocellular reticular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.27289
GSE223241_1_v_3_cdkn2a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in caudal hippocampal proper	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.80761
H3K4me1_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE174406_2_v_1_lin28b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
WRNIP1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-GR-A4D5-01A-11R-A31O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE106661,GSE106665_0_v_3_arid1a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Folium-tuber vermis (VII), molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.81125
GSE202434,GSE202438_3_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TCF12_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Neurotoxicity Syndromes	CTD Gene-Disease Associations	1.0	1.60944
GSE57871_6_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
periventricular stratum of PcPV	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.09868
SOX2	ChEA Transcription Factor Targets	1.0	null
POLR2AphosphoS2_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BACH1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_1174_KD_RUNX1_ERP128097	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE140936,GSE140938_0_v_1_slfn11_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HDAC1	ENCODE Transcription Factor Targets	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.04987
H3K4me3_fibroblast of upper leg skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
eGFP-JUNB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1092	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13714
mRNA_ESX1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.864208
mediodorsal nucleus of thalamus_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.879329
YY1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD54B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05826
GSE202434,GSE202438_13_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1_G1E-ER4_mm9_8	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
GSE150669_0_v_1_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE70935_2_v_0_cyfip1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_4317_KO_Fmn2_SRP109283	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.47857
ETS1	ENCODE Transcription Factor Targets	1.0	null
GSE164874_5_v_0_prednisolone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
LS1034	CCLE Cell Line Gene Expression Profiles	1.0	1.60902
intrinsic component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
GSE195559_8_v_1_notch1_human	RummaGEO Gene Perturbation Signatures	1.0	null
bed nucleus of the stria terminalis, laterocentral division	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.01385
YY1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sox6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	20.1004
SPI1	ChEA Transcription Factor Targets	1.0	null
Perturb_6984_OE_Ppp3cc_SRP321708	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
OVMANA	DepMap CRISPR Gene Dependency	1.0	2.26789
Macrocytic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.319
GSE147876,GSE147877_4_v_10_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MYC_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-BI-A0VS-01A-11R-A10U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE143316_0_v_6_somatostatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MXI1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE96777,GSE96778_3_v_2_zbtb4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC7773934-Table_1.XLSX-Table_S2-Supplementary_Table_2_TBX22_co-expressed_genes_detailed_results_TBX22	Rummagene Transcription Factor Associations 2026	1.0	null
GSE219274,GSE219276_2_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	1.0	null
periventricular stratum of m1AL	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.40018
CTCF_A549_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZMIZ1	ENCODE Transcription Factor Targets	1.0	null
Tcof1_KD_GDS998_155_mouse_neuroblastoma N1E-115 cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-4858-01A-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TCF12_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_6307_KD_NR2F1AS1_SRP335917	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.30925
Perturb_4141_KO_Apoe_SRP131850	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.59189
GSE148066,GSE157787_8_v_4_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-FA-8693-01A-11R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_17541_KD_MEOX1_SRP213607	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
S0-EE-Y79N_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.240299
POLR2A_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMAD2-18955504-HaCaT-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A29T-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE239373_0_v_1_mettl3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EP300_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_choroid plexus epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pheochromocytoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.942
hsa-miR-3179	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
GSE97352_1_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
7480_RPL8_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.63903
SMARCA4-20176728-TROPHOBLAST STEM CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
bone marrow cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.572018
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
RAD21_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Principal sensory nucleus of the trigeminal	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.24304
SAP30_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE223008_9_v_8_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28552
GSE142210_4_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MTDH_DEPLETION_GDS3179_98_human_LM2 breast cancer cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Ovarian Neoplasms	CTD Gene-Disease Associations	1.0	1.07875
immune system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.230755
CTCF_K562_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE169571_0_v_2_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PNMA2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22096
NCIH1092	CCLE Cell Line Gene Expression Profiles	-1.0	-1.93473
CTCF_GM12873_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE165682_2_v_1_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MEF2A_MEF2A	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE102467_3_v_2_pazopanib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1	ENCODE Transcription Factor Targets	1.0	null
Endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K4me3_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
superficial stratum of r7BM	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.63668
GSE189609_1_v_0_hax1_human	RummaGEO Gene Perturbation Signatures	1.0	null
3731_HINFP_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.01907
GSE214248_0_v_1_cxcl8_human	RummaGEO Gene Perturbation Signatures	1.0	null
Treacher Collins syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.113
GSE148695,GSE167281_2_v_1_satb2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.974459
Perturb_6521_KD_HES3_SRP162877	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.92615
TAL1	ENCODE Transcription Factor Targets	1.0	null
GSE210580_5_v_6_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_choroid plexus epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-21-5783-01A-41R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE207787_1_v_4_pdha1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135350_3_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Nerve Degeneration	CTD Gene-Disease Associations	1.0	1.34459
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MY-A5BF-11A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.4208
REST_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPB_myocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89018_11_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
intermediate stratum of r10Ve	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.94077
hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.064073
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A4F9-06A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-XR-A8TE-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FD-91-OK66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.25282
Prostate adenocarcinoma_PRAD_TCGA-G9-6498-01A-12R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-S7-A7X0-01A-12R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE196699_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Paragigantocellular reticular nucleus, dorsal part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.16567
basolateral amygdaloid nucleus, anterior part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.04597
hsa-let-7c	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
PMC6904118-NIHMS1544763-supplement-5.xlsx-MYB_Individual-MYB_sgRNA-5_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
GSE77108_3_v_9_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE139455_4_v_5_stat3_human	RummaGEO Gene Perturbation Signatures	1.0	null
Foxo1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.1262
GSE100102_2_v_5_cgas_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE57871_1_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
DA-10-ZX00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.280779
CTCF_fibroblast of mammary gland_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ribonucleoprotein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.391228
RETSAT	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04324
19286929-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
TBP_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ribosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.516124
zfpm2_19411579_heart_lof_mouse_gpl1261_gds3659	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.546374
7513_RPS24_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.24216
Retrosplenial area, lateral agranular part, layer 1	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.14486
CF-15-FD69_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.230388
NR3C1-21868756-MCF10A-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
KMS-26	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.33172
Perturb_17431_KO_Tcf7_SRP096345	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Amsacrine_A-172	Tahoe Therapeutics Tahoe 100M Perturbation Atlas	-1.0	-0.011708
POLR2A_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE122711_1_v_0_mpc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE207582_2_v_1_testosterone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EGR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-5549-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE213588_9_v_7_trametinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
BE-27-RQ61_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.291294
Inflammatory bowel disease	GWAS Catalog SNP-Phenotype Associations 2025	1.0	1.45229
NC-01-ET52_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.286975
CD24	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.55738
NTERA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.874352
7455_RPL27_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.48151
PMC11699082-BLOODA_ADV-2023-012291-mmc1.xlsx-Sheet1-CD37_inv_corr_top100_GSE10846_CHOP_GCB_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-85-A513-01A-12R-A26W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE221327_4_v_9_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE161295_2_v_3_cdk8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE147876,GSE147877_4_v_6_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PTK7_knockdown_185_GSE50138	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.21843
GSE193993_1_v_2_sstr2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE71529,GSE71558_1_v_0_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K9ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE151494_1_v_4_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE152432_6_v_4_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE148066,GSE157787_9_v_1_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE125153_1_v_0_bcl3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
not applicable_Hypothermia_GSE54229_131_mouse_Embryonic fibroblas	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
CUX1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_13653_KD_CELSR2_SRP149837	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
RCOR1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_EZH2_18974828	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.384822
Perturb_12053_KD_Jak1_SRP072124	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.06578
r1 part of the 'mesencephalic' trigeminal nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.00636
TEAD4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dactinomycin_mus musculus_gpl6246_gse21233	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE185519_1_v_0_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Autoimmune disease of gastrointestinal tract	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.518
Pancreatic adenocarcinoma_PAAD_TCGA-HZ-A77Q-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE166920_6_v_8_adalimumab_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	0.887975
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
PMC6151027-12864_2018_5080_MOESM3_ESM.xlsx-E16_vs_D1_1084_AR-DEGs-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
YY1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7568_RRP9_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.18341
Kidney Chromophobe_KICH_TCGA-KO-8404-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_medulloblastoma_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Thrombocytosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.507
MALME3M	CCLE Cell Line Gene CNV Profiles	-1.0	-1.88009
hsa-miR-4310	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
H3K27ac_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE242083,GSE242098_3_v_1_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-A4-7828-01A-11R-2139-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
2551_EIF3G_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.47377
NFIC_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-QQ-A8VF-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE146156_1_v_3_tagap_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of mammary gland_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EED	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.20809
CTCF_BE2C_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventral isthmic part of dorsal raphe nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.12756
GSE226316_11_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE158456_2_v_3_furin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE146074_10_v_8_ly6e_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsolateral isthmic part of the dorsal raphe nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.29105
superficial stratum of r9Tr	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.26207
GSE225869_2_v_0_cd44_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_SK-N-SH_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
496100390_PCx_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.47406
ZNF143_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE130383_1_v_0_gps2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
REST	ENCODE Transcription Factor Targets	1.0	null
ventrolateral prefrontal cortex_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.833655
CTCF_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SKNDZ	DepMap CRISPR Gene Dependency	1.0	2.11493
SMAD3-18955504-HaCaT-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
COR-L88	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58239
dorsolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.06106
Perturb_3787_KD_GLI1_SRP042158	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE201657_0_v_1_ash2l_human	RummaGEO Gene Perturbation Signatures	-1.0	null
STAT4-19710469-TH1 cell mouse-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
KA-81-AG66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.875584
H3K4me1_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Bone disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.946
TAF1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE201309_5_v_6_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_GM06990_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE226249_2_v_7_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
RB_DN.V1	MSigDB Signatures of Differentially Expressed Genes for Cancer Gene Perturbations	-1.0	null
Medial amygdalar nucleus, posteroventral part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.55907
fat_e	HPA Tissue Sample Gene Expression Profiles	1.0	2.21456
Uterine Carcinosarcoma_UCS_TCGA-N6-A4V9-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.883805
GSE215086_4_v_7_batf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
COLO 679	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.897971
Perturb_5974_KD_THRAP3_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.74743
LOUNH91	DepMap CRISPR Gene Dependency	1.0	3.06771
TTLL5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15232
H3K4me3_fibroblast of gingiva_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of lung_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE155305_2_v_0_ifitm3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Lobules IV-V, molecular layer	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	-1.0	-1.0371
MAX_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EBF1	ENCODE Transcription Factor Targets	1.0	null
type 2 diabetes mellitus	GWASdb SNP-Disease Associations	1.0	0.584448
Brain Lower Grade Glioma_LGG_TCGA-E1-A7YN-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC11046918-12967_2024_5211_MOESM5_ESM.xlsx-C_FUS-DDIT3-eGFP_vs_eGFP-Table_S3_Regulated_genes_between_scaffold-cultured_HT1080_FUS_DDIT3-eGFP_cells_and_control_cell_lines_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5696-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RPMI 8226	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.08789
Ventromedial hypothalamic nucleus, anterior part	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.92331
r9 part of spinal vestibular nucleus	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	1.0	1.28384
MAFF	ENCODE Transcription Factor Targets	1.0	null
GSE249098_1_v_0_mthfd1l_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE217156_1_v_3_trpc1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE132369,GSE132371_1_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PL-21	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.28278
PMC10592471-NIHMS1912771-supplement-4.xlsx-D-HEP3_UP_AA_UP-AA_UP_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE148066,GSE157787_2_v_10_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
7536_RPS6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.51809
pontine nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.17717
adrenal gland	HPA Tissue Protein Expression Profiles	1.0	0.860608
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43949
PMC11655728-12672_2024_1562_MOESM2_ESM.xlsx-Sheet1-Hs_ESC_OCT4_targets_Boyer_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_12_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PPARA_agonist activation_GSE17251_474_human_Isolated hepatocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE145639_1_v_4_adar_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TIA1_KO_GSE54418_260_mouse_cerebellum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null