association	dataset	threshold value	standardized value
bounding membrane of organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.069799
CTCFL_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mitosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.727
CHD2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BE-31-XV38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.224786
H3K4me3_mammary epithelial cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE200673,GSE200691_2_v_3_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
OVCA 420	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.60343
YY1	ENCODE Transcription Factor Targets	1.0	null
CD105+_Endothelial	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.17936
GTEX-OIZH-0005-SM-2HMJN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.94746
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3839
Intracellular vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.567
H3K4me3_bronchial epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
UBAC1	Pathway Commons Protein-Protein Interactions	1.0	null
ventrolateral prefrontal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.64385
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE187005_5_v_2_atf4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE57871_1_v_9_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Paraflagellar rod	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.054
RAB3GAP1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K27ac_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
TBX5	ChEA Transcription Factor Targets	1.0	null
central nervous system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
SOX9-25088423-EMBRYONIC GONADS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
CDC23	Pathway Commons Protein-Protein Interactions	1.0	null
TRIM28_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
vesicle	GO Cellular Component Annotations 2015	1.0	null
H3K4me3_fibroblast of foreskin _hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7013-01A-11R-2027-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-UF-A7JS-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_A549_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
ELF1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nucleobase-containing compound metabolic process	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-A3-3363-01A-01R-0864-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOXP2_SK-N-MC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hair	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
ZIM3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.9933
ZMIZ1	ENCODE Transcription Factor Targets	1.0	null
Oral apparatus	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.654
GTEX-RM2N-0008-SM-48FF3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.825755
BC-43-PD20_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.283937
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HAND1_HAND1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC11214527-mmc5.xlsx-POU5F1-gene_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
CADPS2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE89154_1_v_0_proscillaridin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Autophagosome membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.734
TP53-23651856-MEF-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
BRCA1	ENCODE Transcription Factor Targets	1.0	null
GSE201309_5_v_3_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Liver carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.128
PB-18-HD85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.82057
10025_ZC3H4_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.597401
CTCF_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE223893_11_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-FV-A495-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TQ-A7RM-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KNTC1	Pathway Commons Protein-Protein Interactions	1.0	null
USF1_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_Caco-2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Motor neuron disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.115
RD-50-EO07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.436413
GTEX-S7SF-1426-SM-4AT5A	GTEx Tissue Sample Gene Expression Profiles	1.0	0.994575
ARHGAP8	Pathway Commons Protein-Protein Interactions	1.0	null
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.11157
9454_TXNIP_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.688822
TRAPPC5	Pathway Commons Protein-Protein Interactions	1.0	null
PPM1B	Pathway Commons Protein-Protein Interactions	1.0	null
MXI1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DH-A669-01A-12R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
gigantocellular group, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.857808
HDLBP	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
MAZ_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF7_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-T6MO-0003-SM-3NMAG	GTEx Tissue Sample Gene Expression Profiles	1.0	2.25163
AURKA_knockdown_89_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.00841
TAL1	ENCODE Transcription Factor Targets	1.0	null
RANGAP1	Pathway Commons Protein-Protein Interactions	1.0	null
TCF12_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nitrogen compound metabolic process	GO Biological Process Annotations 2015	1.0	null
CTCF_fibroblast of foreskin _hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COG3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE152432_5_v_4_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27ac_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H2BK5ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
A549_Nintedanib_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0123226
COLO 829	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.966961
GTEX-P4QT-1426-SM-3NMCX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.899009
pancreas_6b	HPA Tissue Sample Gene Expression Profiles	-1.0	-0.969068
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A42C-01A-11R-A23N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-QK-A6IH-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_MCF-7_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_brain microvascular endothelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_REST_18959480	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
8431_SRSF1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.595333
H3K4me3_astrocyte of the cerebellum_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-DQ-5629-01A-01R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	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 RNA-seq	1.0	1.95513
ZB-93-OS38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.203554
mediodorsal nucleus of thalamus_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.07283
SNX12	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM52PE	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.934461
A549_AR-42_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0130332
H3K4me2_myotube_hg19_1	ENCODE Histone Modification Site Profiles	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 Microarray	-1.0	-1.03078
ECC12	CCLE Cell Line Gene Expression Profiles	1.0	1.5014
PMC7098486-mmc2.xlsx-Kgg_Quant_NGN2_AAVS_-_WCL-Unnamed_2_NEUROG2	Rummagene Transcription Factor Associations 2026	1.0	null
ESCRT-II complex	CORUM Protein Complexes	1.0	null
496100553_TCx_probable Alzheimer's disease_TBI_78_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.118
GSE108326_1_v_0_doxycycline_mouse	RummaGEO Drug Perturbation Signatures	-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	-0.975419
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42812
GTEX-X4XX-0011-R1B-SM-3P622	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.25565
PDZD8	Pathway Commons Protein-Protein Interactions	1.0	null
GSE137144_2_v_6_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SOX10	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE135352_0_v_4_napabucasin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE226249_5_v_6_pirfenidone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cellular_component	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GABP-19822575-HEPG2-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
LRCH4	Pathway Commons Protein-Protein Interactions	1.0	null
ZNF384_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
extracellular organelle	GO Cellular Component Annotations 2015	1.0	null
inferolateral temporal cortex (area TEv, area 20)_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.99083
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.66552
H3K4me3_Stomach Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20R-11A-11R-A16R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
PMC6345883-41598_2018_37397_MOESM10_ESM.xlsx-AR_D0_VS_D14__TRANS-Gene_Name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
zona incerta, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.916965
frontal pole, left, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.39582
pineal body	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.06402
doxorubicin_homo sapiens_gpl570_gse46493	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
regulation of epidermal growth factor-activated receptor activity	GO Biological Process Annotations 2023	1.0	null
BA-56-QV45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-4.03404
SPDEF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.0121
BD-04-NG34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.226624
organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.465598
SNX14	Pathway Commons Protein-Protein Interactions	1.0	null
RABL3	Pathway Commons Protein-Protein Interactions	1.0	null
PMC10061014-Table5.XLSX-C_vs_L-Table_S5a_Results_of_gene-wise_analysis_of_cd-ASE_depending_on_LPS_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
MAZ_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIX5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9420_TUBB_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.541619
ELF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POU5F1	ChEA Transcription Factor Targets	1.0	null
KDM4A	ENCODE Transcription Factor Targets	1.0	null
SNX3	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-OOBK-0625-SM-3LK5P	GTEx Tissue Sample Gene Expression Profiles	1.0	1.57694
ML-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-4.88756
GSE153871_1_v_3_cytarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE60691_2_v_1_glutamine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
RACGAP1	Pathway Commons Protein-Protein Interactions	1.0	null
Storage vacuole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.075
17638893-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3447-01A-01R-1766-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GABP-19822575-HepG2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-OIZI-1426-SM-3NB1T	GTEx Tissue Sample Gene Expression Profiles	1.0	1.61349
PMC9794594-DataSheet_1.xlsx-ST12-Unnamed_6_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
Hepatobiliary disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.2
ELF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PK-45H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.947102
CTCF_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAPRE1	Pathway Commons Protein-Protein Interactions	1.0	null
Ferroxidase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.641
GTEX-OHPM-0008-SM-4E3IP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0109
GTEX-RVPV-0008-SM-47JYW	GTEx Tissue Sample Gene Expression Profiles	1.0	1.29401
H3K4me3_H1 Derived Neuronal Progenitor Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
AP3M1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-T5JC-0005-SM-4DM7B	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.22599
DA-66-OE69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.343296
FOS::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.5084
Endosomal Sorting Complex Required For Transport (ESCRT)	Reactome Pathways 2024	1.0	null
regulation of rna biosynthetic process	GO Biological Process Annotations 2015	1.0	null
A549_Navitoclax_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.013244
H3K4me3_H1 BMP4 Derived Trophoblast Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
YY1_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dorsolateral prefrontal cortex_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.87261
GTEX-PWO3-0011-R3A-SM-2I5EX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.96117
CTCF_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
disease by infectious agent	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.041725
POLR2A_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
uterus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.07002
STK10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.11942
ATP6V1E1	Pathway Commons Protein-Protein Interactions	1.0	null
PC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.16535
H3K4me3_fibroblast of lung_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_epithelial cell of esophagus_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF263	ENCODE Transcription Factor Targets	1.0	null
PMC5031867-mmc2.xlsx-RYTTCCTG_V_ETS2_B-GENE_SYMBOL_ETS2	Rummagene Transcription Factor Associations 2026	1.0	null
SK-MEL-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.986355
253JBV	CCLE Cell Line Gene Expression Profiles	1.0	1.76776
GTEX-XMK1-0001-SM-4B64F	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03999
TEAD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP in entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.08549
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.09
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A3A3-01A-11R-A22L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
nuclear lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
TGFBRAP1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE218819_3_v_4_kdm5b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PPP5C	Pathway Commons Protein-Protein Interactions	1.0	null
establishment of localization	GO Biological Process Annotations 2015	1.0	null
STX3	Pathway Commons Protein-Protein Interactions	1.0	null
DNM1L	Pathway Commons Protein-Protein Interactions	1.0	null
GSE118766_2_v_0_ifng_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
non-membrane-bounded organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
VAPB	Pathway Commons Protein-Protein Interactions	1.0	null
JARID1A-20064375-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
cellular component organization or biogenesis	GO Biological Process Annotations 2015	1.0	null
GSE239688_4_v_1_canagliflozin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZBTB7A	ENCODE Transcription Factor Targets	1.0	null
GSE80446_2_v_1_anakinra_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
TPX2	Pathway Commons Protein-Protein Interactions	1.0	null
GARP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.966
ETS1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FAM21A	Pathway Commons Protein-Protein Interactions	1.0	null
STAT3	JASPAR Predicted Transcription Factor Targets	1.0	null
GTEX-WL46-0011-R9A-SM-3MJFP	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.10868
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A3Y7-01A-11R-A239-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-NL3H-0011-R1a-SM-48TDJ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.97132
ZNF354C	JASPAR Predicted Transcription Factor Targets	1.0	null
establishment of localization in cell	GO Biological Process Annotations 2015	1.0	null
BD-69-XG81_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.319654
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-JW-A5VI-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
GTEX-XPT6-0001-SM-4B64G	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06557
USF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_kidney epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE150055_0_v_1_melphalan_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_pancreas_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-NL4W-0008-SM-4E3I2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0509
AP2A1	Pathway Commons Protein-Protein Interactions	1.0	null
CANX	Pathway Commons Protein-Protein Interactions	1.0	null
SLR21	CCLE Cell Line Gene Expression Profiles	1.0	2.56377
DA-85-SU90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.11906
Perturb_1052_KD_ESRRA_SRP267236	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
EIF4E3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01892
H3K4me3_astrocyte of the cerebellum_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SIX5	ENCODE Transcription Factor Targets	1.0	null
KURAMOCHI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.889185
OVCA 429	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.888168
EIF2D	Pathway Commons Protein-Protein Interactions	1.0	null
H2AFZ_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A7ET-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VZ in hypothalamic portion	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.35905
SIX5_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-2392	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
9+2 motile cilium	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.228
lateral group of nuclei, right, dorsal division	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.902758
GTEX-NPJ7-0011-R1a-SM-3GACT	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.917616
GSE237984_1_v_0_magi1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GABP-17652178-JURKAT-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EP-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-Q2AH-1826-SM-2S1Q2	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.956939
GSE240386,GSE242143_1_v_4_morc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
THAP1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LSG1	Pathway Commons Protein-Protein Interactions	1.0	null
RBX1	Pathway Commons Protein-Protein Interactions	1.0	null
membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.452825
PHLDA2	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-V955-0004-SM-3NMDH	GTEx Tissue Sample Gene Expression Profiles	1.0	1.46898
RCOR1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hecv	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.557
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE261563_6_v_1_atrx_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K36me3_NT2-D1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE169205_0_v_6_sirt5_human	RummaGEO Gene Perturbation Signatures	1.0	null
BE-42-IC00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.494393
cytoplasmic transport	GO Biological Process Annotations 2015	1.0	null
primary visual cortex (striate cortex, area V1/17)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01524
MYBL2-22936984-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-XUJ4-2026-SM-4BOOW	GTEx Tissue Sample Gene Expression Profiles	1.0	1.41921
GSE157557,GSE157559_1_v_0_parp1_human	RummaGEO Gene Perturbation Signatures	1.0	null
SUIT-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.17167
GSE159728,GSE159730_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MYO6	Pathway Commons Protein-Protein Interactions	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A29V-06A-12R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
STX12	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_bone marrow_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TP53-23651856-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.946039
H3K4me3_Jurkat_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SNU-638	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30456
mammalian	GeneRIF Biological Term Annotations	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AS-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cardiac fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_Brain Inferior Temporal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
FA-63-WI26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.14967
PLIN3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE48812_8_v_1_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
15474998-tableS1c	GeneSigDB Published Gene Signatures	1.0	null
SREBF2	JASPAR Predicted Transcription Factor Targets	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7125-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Vesicle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GTEX-UJMC-1826-SM-3GADT	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.833816
FUOV1	CCLE Cell Line Gene CNV Profiles	1.0	1.40256
SIN3A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COPB2	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-4324	TargetScan Predicted Conserved microRNA Targets	1.0	0.283838
Acute Myeloid Leukemia_LAML_TCGA-AB-2833-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF1_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PWOO-1326-SM-48TCJ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.12124
TBX20-22080862-HEART-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
STAT5B	Pathway Commons Protein-Protein Interactions	1.0	null
SRY	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.3929
KC-32-GO33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.359131
GTF2F1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_HCT116_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GTEX-WHSE-1126-SM-3NMBU	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.28778
GTEX-TSE9-0005-SM-4DXUF	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.24816
SACM1L	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-4763-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.107229
RAD21_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.02
NB-80-IM48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-4.84241
AC-47-YZ27_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.19664
ERLIN2	Pathway Commons Protein-Protein Interactions	1.0	null
vacuole	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.442896
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.83066
locus ceruleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.950995
orbital frontal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09223
rna biosynthetic process	GO Biological Process Annotations 2015	1.0	null
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.58286
posterior (caudal) superior temporal cortex (area 22c)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.6486
GSE151782_2_v_0_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DTNBP1	Pathway Commons Protein-Protein Interactions	1.0	null
NURR1	MotifMap Predicted Transcription Factor Targets	1.0	null
ERGIC1	Pathway Commons Protein-Protein Interactions	1.0	null
pancreas_6a	HPA Tissue Sample Gene Expression Profiles	-1.0	-0.825657
LANCL1	Pathway Commons Protein-Protein Interactions	1.0	null
7444_RPL19_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.571827
NF-21-HQ00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.278427
TJP2	Pathway Commons Protein-Protein Interactions	1.0	null
A549_GSK-LSD1 2HCl_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0137235
DB-21-FY75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.484152
H3K4me3_SK-N-SH_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RBPJ-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
inner SZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.02146
GSE103068_5_v_1_volasertib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MAP2K2	Pathway Commons Protein-Protein Interactions	1.0	null
lung epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.673728
H3K4me3_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
JHH-6	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.45431
POLR2A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CDK4	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-3653	TargetScan Predicted Conserved microRNA Targets	1.0	0.49473
Abscission zone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.596
nervous system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
GSE154577_2_v_9_plagl1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GABPA_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-U4B1-1626-SM-3DB8N	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.950887
ZNF324	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.8045
NEK9	Pathway Commons Protein-Protein Interactions	1.0	null
GSE227698_2_v_4_g0s2_human	RummaGEO Gene Perturbation Signatures	1.0	null
MF-37-KQ09_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.35592
2858_FAM136A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.689415
GTEX-RTLS-0008-SM-48FET	GTEx Tissue Sample Gene Expression Profiles	1.0	0.87429
GTEX-XMK1-1726-SM-4B64Z	GTEx Tissue Sample Gene Expression Profiles	1.0	1.35366
GSE145790_0_v_1_bruceantin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_6053_KD_PRMT1_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
VPS33A	Pathway Commons Protein-Protein Interactions	1.0	null
RAB25	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
EP300_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2BK12ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Septin ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.748
Stamen	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.046
GTEX-RU72-0011-R11A-SM-2TF6J	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.10269
Microsporidian	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.877
H3K4me3_Brain Anterior Caudate	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GTEX-XMD1-0011-R2B-SM-4AT5N	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.95798
GTEX-T5JC-1726-SM-4DM6U	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01464
H3K4me3_fibroblast of lung_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
REST_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Situs inversus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.358
PPT1	Pathway Commons Protein-Protein Interactions	1.0	null
PML_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNX17	Pathway Commons Protein-Protein Interactions	1.0	null
H3K27ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
4951_MED28_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.518561
Skin	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
POLR2A_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AP3B1	Pathway Commons Protein-Protein Interactions	1.0	null
LAMTOR3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE169205_3_v_6_sirt5_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-XOTO-0011-R7B-SM-4B64R	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.96664
GSE174498,GSE174500_0_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE207301,GSE207303_1_v_2_tp53bp2_human	RummaGEO Gene Perturbation Signatures	1.0	null
A2058	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.976027
TLN2	Pathway Commons Protein-Protein Interactions	1.0	null
outer portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.854649
ZNF219	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.13241
Membrane Trafficking	Reactome Pathways 2014	1.0	null
hsa-miR-1254	TargetScan Predicted Conserved microRNA Targets	1.0	1.45615
HB-06-WU12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.08478
H3K4me3_CD4 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
1536_CFL1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.510501
nucleic acid metabolic process	GO Biological Process Annotations 2015	1.0	null
H3K4me3_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
OCT4-18692474-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
primary visual cortex (striate cortex, area V1/17)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.74942
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE153871_5_v_2_cytarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.011
CAMK2N1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.11196
ETV7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.7541
GTEX-REY6-0005-SM-2TF54	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.909393
AD-06-OB47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.4967
SPC25	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_HepG2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Negative cofactor 2 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.137
POLR2AphosphoS5_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UBTF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE196699_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE62974_1_v_0_epas1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_B cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-UJHI-0008-SM-4IHL1	GTEx Tissue Sample Gene Expression Profiles	1.0	0.981059
EIF2B1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE225218_0_v_3_abcb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NFE2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.1574
cerebellar cortex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.853084
M14 cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	1.0	0.933562
9744_VPS25_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-1.02904
GTEX-T5JC-0011-R9A-SM-32PLV	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.34003
hsa-miR-3151	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
ETS2	MotifMap Predicted Transcription Factor Targets	1.0	null
TBC1D17	Pathway Commons Protein-Protein Interactions	1.0	null
A549_Azacitidine_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0140366
PAX5	ENCODE Transcription Factor Targets	1.0	null
intracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
PPM1A	Pathway Commons Protein-Protein Interactions	1.0	null
TEAD4	ENCODE Transcription Factor Targets	1.0	null
NUP58	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22659
H3K27ac_CD4 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
regulation of epidermal growth factor-activated receptor activity	GO Biological Process Annotations 2025	1.0	null
Intracellular organelle lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.568
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-FF-8041-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PNPT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.67376
H3K4me2_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ATP5PD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08071
CEBPB_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.14442
PML_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CB-32-EI69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20758
H3K4me3_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_8855_OE_ERG3_SRP034736	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.00219
HIP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.64884
POLR2AphosphoS5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREB1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF267	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.36902
SMIM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.67912
PECAPJ41CLONED2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.5708
AD-58-PW17_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.462892
TAOK3	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-NPJ8-0011-R2a-SM-2TC6M	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.892346
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.994528
Vesicular gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.535
REST_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD4	Pathway Commons Protein-Protein Interactions	1.0	null
FOS::JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1448
whole body	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Perturb_6056_KD_QKI_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GTEX-OIZH-1626-SM-2HMKI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.45687
REST	ENCODE Transcription Factor Targets	1.0	null
CTCF_GM19238_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
REST_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-OXRL-0626-SM-3NM9C	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01004
VMRC-LCD	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.05177
HCMV Infection	Reactome Pathways 2024	1.0	null
GSE158834_11_v_8_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SP1	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-PWO3-0011-R2A-SM-2S1OX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.35863
Lung squamous cell carcinoma_LUSC_TCGA-33-4589-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.4677
paraventricular nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.01911
OBI1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.86904
SIN3A_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE234637_3_v_0_ikzf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-RNOR-1226-SM-48FDQ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.26854
CTCF_GM12865_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE102467_1_v_2_pazopanib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_epithelial cell of proximal tubule_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CC-61-HH09_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.519964
PHB	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SmoothMuscle	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.0516
CTCF_MCF-7_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_962_KD_UHRF1_SRP331230	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
IZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.09418
GSE138863_3_v_0_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-QEL4-0626-SM-3GIJM	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.979369
DCTN3	Pathway Commons Protein-Protein Interactions	1.0	null
multivesicular body assembly	GO Biological Process Annotations 2025	1.0	null
FD-91-OK66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.45657
membrane organization	GO Biological Process Annotations 2023	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	0.859868
OVISE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.20626
marc145	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.603
AP2M1	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DH-A669-02A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TES	Pathway Commons Protein-Protein Interactions	1.0	null
HCFC1_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ciliary cap	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.546
striatum_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.72534
YY1_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SEC61A1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE142210_11_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MZ in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.30785
FF-86-NH56_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.245543
FOXA1_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KDM5A	ChEA Transcription Factor Targets	1.0	null
H2AFZ_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_CD4 Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GNAI1	Pathway Commons Protein-Protein Interactions	1.0	null
multivesicular body	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.32654
CTCF_K562_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
aromatic compound biosynthetic process	GO Biological Process Annotations 2015	1.0	null
GSE158834_7_v_9_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZBTB7A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4755-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.90397
MYC	ENCODE Transcription Factor Targets	1.0	null
A549_Momelotinib_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0130959
H3K4me3_K562_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12871_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-24-3p	MiRTarBase microRNA Targets	1.0	null
PLEKHA2	Pathway Commons Protein-Protein Interactions	1.0	null
GABPA_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE175787_13_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.323
EZH2_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIX5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEN	CCLE Cell Line Gene CNV Profiles	1.0	1.53302
increased total body fat amount	MGI Mouse Phenotype Associations 2023	1.0	null
MVB12A	Pathway Commons Protein-Protein Interactions	1.0	null
ELF5	ChEA Transcription Factor Targets	1.0	null
posteroventral (inferior) parietal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.64581
PANC1005	CCLE Cell Line Gene CNV Profiles	1.0	1.62056
FICD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.52566
mediodorsal nucleus of thalamus_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.35896
superior rostral gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.902548
bronchoalveolar system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.496092
RCOR1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-A61C-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
4953_MED30_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.74793
GD-82-CS38_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296691
temporal pole, right, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.00139
H3K4me3_fibroblast of villous mesenchyme_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-W5WG-0002-SM-3NMDN	GTEx Tissue Sample Gene Expression Profiles	1.0	2.2064
GSE134191_3_v_5_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
SEC23A	Pathway Commons Protein-Protein Interactions	1.0	null
FD-91-OK66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.900754
membrane-bounded vesicle	GO Cellular Component Annotations 2015	1.0	null
AMMECR1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02249
Liver	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.66329
CHMP2A	Pathway Commons Protein-Protein Interactions	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BL-A3JM-01A-12R-A21D-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8429-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
protein binding	GO Molecular Function Annotations 2015	1.0	null
GSE233679_12_v_10_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GATA5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6017
Wt1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	96.1
cerebellar cortex_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.15218
ANXA6	Pathway Commons Protein-Protein Interactions	1.0	null
GOSR2	Pathway Commons Protein-Protein Interactions	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
GTEX-P44H-0008-SM-48TDW	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01552
preweaning lethality, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
NCIH647	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43659
PMC9992472-41467_2023_36735_MOESM7_ESM.xlsx-SOX11_ChIP_in_IMR-32-Unnamed_12_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
abnormal hindlimb zeugopod morphology	MGI Mouse Phenotype Associations 2023	1.0	null
KP-1N	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K27ac_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZNF672	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14754
H3K4me3_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
ETS1-21867929-TH2-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_cardiac mesoderm_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_A549_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
membrane part	GO Cellular Component Annotations 2015	1.0	null
496100508_PCx_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	-3.41659
IRF4_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NUP210	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0234
CTCF_GM12872_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-S341-0526-SM-4AD5U	GTEx Tissue Sample Gene Expression Profiles	1.0	1.3921
GSE180800,GSE180801_0_v_5_tex10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ARHGEF10L	Pathway Commons Protein-Protein Interactions	1.0	null
IRF4	ENCODE Transcription Factor Targets	1.0	null
GTEX-UPJH-0001-SM-3NMDE	GTEx Tissue Sample Gene Expression Profiles	1.0	2.59242
POLR2AphosphoS5_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-NL4W-0006-SM-2I3GH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.79465
GSE142210_3_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-RUSQ-1926-SM-2TF6K	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.860546
Pituitary	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.825648
TF-77-DW08_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.792267
Organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
ZBTB7A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA3_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-BC-A69H-01A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
dorsolateral prefrontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.03697
orbital frontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.871611
heterocycle biosynthetic process	GO Biological Process Annotations 2015	1.0	null
NAPG	Pathway Commons Protein-Protein Interactions	1.0	null
respiratory system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.219928
NEF cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.488
XPOT	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-RTLS-0006-SM-2TF58	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.08431
Prostasome	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.837
Head capsule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.866
EMC-BAC-2	COSMIC Cell Line Gene Mutation Profiles	1.0	null
MAX_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_BJ_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of the aortic adventitia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
nuc1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.614
GSE146074_0_v_3_ly6e_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Rootlet	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.656
ELK1::SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.1135
POLR2A_K562_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IZ in dorsolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.62152
H3K27ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZBTB33_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SPECC1L	Pathway Commons Protein-Protein Interactions	1.0	null
K052	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.99537
PDX1-19855005-MIN6-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.53454
GTEX-QMR6-0011-R1A-SM-32PKW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.22393
JM1	CCLE Cell Line Gene Expression Profiles	1.0	1.3638
CTCFL	ENCODE Transcription Factor Targets	1.0	null
CTCF_retinal pigment epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XMD1-0011-R11A-SM-4AT5J	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.9636
GSE190534,GSE190536_0_v_3_cyclophosphamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
HCC461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
GTEX-T5JW-1126-SM-4DM5V	GTEx Tissue Sample Gene Expression Profiles	1.0	1.49366
UBAP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10474
PMC11604901-13555_2024_1298_MOESM1_ESM.pdf-125-GATAD2B_GATAD2B	Rummagene Transcription Factor Associations 2026	1.0	null
VAMP7	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-UJMC-0008-SM-4IHKK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.89024
7455_RPL27_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.653642
H2AFZ_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Subapical complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.91
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TAOK1	Pathway Commons Protein-Protein Interactions	1.0	null
membrane-enclosed lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.075722
CEBPB-20513432-MACROPHAGES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
POLR2AphosphoS2_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Outer dynein arm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.481
GDI2	Pathway Commons Protein-Protein Interactions	1.0	null
PBX3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT6	Pathway Commons Protein-Protein Interactions	1.0	null
WT1-20215353-NEPHRON PROGENITOR-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
496100639_TCx_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.15526
EBNA2-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
TAF7L	ChEA Transcription Factor Targets	1.0	null
SRF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MTA3	ENCODE Transcription Factor Targets	1.0	null
OUMS-23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.07334
GSE158834_0_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BCLAF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
vps25	GeneRIF Biological Term Annotations	1.0	null
GSE202434,GSE202438_15_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
ventral posterior lateral nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3915
STARD7	Pathway Commons Protein-Protein Interactions	1.0	null
sorting	GeneRIF Biological Term Annotations	1.0	null
GTEX-QVJO-0008-SM-447AU	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21207
SP100	Pathway Commons Protein-Protein Interactions	1.0	null
Perturb_8856_OE_ERG3_SRP034736	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.71029
Phagophore	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.103
COV504	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33902
H2AFZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.0573
ZNF677	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.8805
ARL8B	Pathway Commons Protein-Protein Interactions	1.0	null
8MGBA	CCLE Cell Line Gene CNV Profiles	1.0	1.4328
septum (resp epith)	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.63248
KIF2A	Pathway Commons Protein-Protein Interactions	1.0	null
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.51
PMC12582692-medi-104-e45093-s001.xlsx-Table_S1-Table_S1_Genetic_instruments_of_plasma_proteins_for_MR_analysis_NR3C2	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-NPJ8-0011-R9a-SM-2YUN5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.849776
single-organism localization	GO Biological Process Annotations 2015	1.0	null
muscle	GTEx Tissue Gene Expression Profiles	-1.0	-1.05803
PLEKHH1	Pathway Commons Protein-Protein Interactions	1.0	null
16622258-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
Muscle - Skeletal	GTEx Tissue Gene Expression Profiles 2023	-1.0	-1.16027
1840_CPSF2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.67399
EBF1	ENCODE Transcription Factor Targets	1.0	null
GTEX-WYBS-1226-SM-3NM9N	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.38973
IC-76-JU42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.21222
VAMP3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE100102_4_v_5_cgas_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EA-18-FP00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.257283
GSE112860_9_v_8_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
hsa-miR-3116	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
POLR2AphosphoS5_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE135030_3_v_10_fludarabine_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	1.481
TCF12_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE189789_0_v_1_oridonin_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-299-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.436802
skeletalmuscle_a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.85781
GSE172490_5_v_3_junb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
intracellular non-membrane-bounded organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
H3K27ac_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
7141_RBBP5_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.614601
KDM5B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-BF-A5ER-01A-12R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ARL6IP1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-N7MT-1226-SM-2D7W4	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.96563
GTEX-OXRL-0008-SM-3NB29	GTEx Tissue Sample Gene Expression Profiles	1.0	0.939999
Fusariosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.013
H3K4me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-S4P3-1626-SM-3K2AZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.949295
PLS1	Pathway Commons Protein-Protein Interactions	1.0	null
multivesicular body organization	GO Biological Process Annotations 2025	1.0	null
H3K9ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XXEK-0004-SM-4BRWO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.35318
GTEX-N7MS-0011-R2a-SM-2HML6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.947749
KAT2A	ENCODE Transcription Factor Targets	1.0	null
uterine cervix	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.289939
orbital frontal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.91323
3286_GART_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.549196
HCC2688	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.0033
NALM6	CCLE Cell Line Gene Expression Profiles	-1.0	-2.47029
A549_WP1066_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0183023
ARHGAP35	Pathway Commons Protein-Protein Interactions	1.0	null
EIF2B5	Pathway Commons Protein-Protein Interactions	1.0	null
SERP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24033
SH3GLB2	Pathway Commons Protein-Protein Interactions	1.0	null
HES-3	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	-1.0	-1.05618
ATF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFG7-0001-SM-3P61S	GTEx Tissue Sample Gene Expression Profiles	1.0	2.72446
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A5SF-01A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-DV-5566-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-33-4532-01A-01R-1201-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RPS6KA4	Pathway Commons Protein-Protein Interactions	1.0	null
3634_HAUS1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.656266
HN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.11398
monocytic leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.14406
Edinger-Westphal nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.76504
MYC_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.022
Late endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.569
PDX1	ChEA Transcription Factor Targets	1.0	null
GSE103372_1_v_2_smad1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MAFK_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FC-22-VC55_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.593715
KA-29-AB08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.502561
PMC3489783__F3	PFOCR Pathway Figure Associations 2023	1.0	null
GTEX-OXRO-0011-R2A-SM-3NB1W	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.46273
Cleavage furrow	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.079
POLR2AphosphoS5_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RALB	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-XUZC-1426-SM-4BRV3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06983
GSE224969,GSE224971_0_v_7_chtop_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HCT-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.961969
H3K4me1_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
L-428	COSMIC Cell Line Gene Mutation Profiles	1.0	null
ATP6V1A	Pathway Commons Protein-Protein Interactions	1.0	null
GSE154767_4_v_0_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_cardiac muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_SK-N-MC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
COLO 201	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.36921
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.886
negative regulation of epidermal growth factor-activated receptor activity	GO Biological Process Annotations 2025	1.0	null
CTCF_fibroblast of pulmonary artery_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MZ in dorsomedial extrastriate cortex (V2)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.23873
POLR2A_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HEPG2	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	2.0913
TRIM24	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_fibroblast of lung_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-P3-A5QF-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
7403_RNMT_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.25891
Head	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Kidney renal papillary cell carcinoma_KIRP_TCGA-B9-4114-01A-01R-1193-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
COV644	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.889185
POLR2A_GM12892_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAP2B	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_Raji_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JF-30-FW92_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.443319
RPLP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07379
POLR2A_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ARL5A	Pathway Commons Protein-Protein Interactions	1.0	null
TUBGCP2	Pathway Commons Protein-Protein Interactions	1.0	null
Winged helix-turn-helix DNA-binding domain	InterPro Predicted Protein Domain Annotations	1.0	null
RPS6KA5	Pathway Commons Protein-Protein Interactions	1.0	null
Endosomal Sorting Complex Required For Transport (ESCRT)	Reactome Pathways 2014	1.0	null
GTEX-WH7G-2026-SM-3NMBL	GTEx Tissue Sample Gene Expression Profiles	1.0	0.868226
Ciliary membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.949
496100410_TCx_possible Alzheimer's disease_TBI_87_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.335
Rectum adenocarcinoma_READ_TCGA-DC-5337-01A-01R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
5730_NOC3L_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.519634
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	-0.9783
SUM1315MO2	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.590572
GSE186647,GSE217288_11_v_7_hnrnpc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
mood disorder	GWASdb SNP-Disease Associations	1.0	0.286798
MCF-7 cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	1.0	0.888234
GSE158834_7_v_13_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
YA-92-YO01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.950936
PMC3470785-NIHMS377161-supplement-3.pdf-497-NR5A2_NR5A2	Rummagene Transcription Factor Associations 2026	1.0	null
EM2	CCLE Cell Line Gene CNV Profiles	1.0	1.853
CTCF_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TC-71	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.90431
GSE120595_0_v_4_arid2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MAPK14	Pathway Commons Protein-Protein Interactions	1.0	null
gigantocellular group, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.17219
Kidney renal papillary cell carcinoma_KIRP_TCGA-B9-A44B-01A-11R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-S32W-0926-SM-4AD5X	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06209
colon	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	-1.0	-0.95262
H3K4me3_fibroblast of lung_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_choroid plexus epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KASUMI1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.61737
DD-42-PC65_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.308168
nucleolus	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
Perinuclear endoplasmic reticulum	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.593
GA-88-CF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.234536
LD-69-ZV56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.611875
GSE124920_1_v_2_prmt1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TEAD4_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CPNE1	Pathway Commons Protein-Protein Interactions	1.0	null
PMC10836071-media-2.xlsx-Supplementary_Table_5-ELK4_unique_ELK4	Rummagene Transcription Factor Associations 2026	1.0	null
AIRE_KO_GDS2015_33_mouse_thymic epithelial cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
NFIC	ENCODE Transcription Factor Targets	1.0	null
GTEX-SIU8-0006-SM-2XCE5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.03248
CTCF_fibroblast of pulmonary artery_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFG8-0006-SM-3GIKS	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02274
CHD2_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A3J5-06A-11R-A20F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
D-502MG	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.56444
GTEX-TML8-0001-SM-3NMAF	GTEx Tissue Sample Gene Expression Profiles	1.0	1.78983
GSE186005_1_v_2_klf5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100395_TCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.0398
PC-3	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.38764
GTEX-OXRP-2426-SM-2S1NR	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.03222
STAT3_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
escrt ii complex	GO Cellular Component Annotations 2015	1.0	null
ARFGAP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1525
DGKQ	Pathway Commons Protein-Protein Interactions	1.0	null
Physical disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.097
CTCF_astrocyte of the cerebellum_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.940598
beta-TC6 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.54
FGFR2_activemutant_59_GSE17916	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.20865
BLOC-1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.549
POLR2A_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-RM2N-1826-SM-2TF5B	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.823979
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2GM-06B-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GOLGA7	Pathway Commons Protein-Protein Interactions	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EM-01A-21R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SNARE complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.354
YY1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BC-14-CG34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.421279
CTCF_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-U412-0006-SM-3DB8J	GTEx Tissue Sample Gene Expression Profiles	-1.0	-3.28272
PMC4595011-pgen.1005555.s003.xlsx-BPTF_DOWN-regulated-Ensembl_gene_id_BPTF	Rummagene Transcription Factor Associations 2026	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.11249
ECSIT	Pathway Commons Protein-Protein Interactions	1.0	null
NR4A2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6147
H3K4me1_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CALM1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-X88G-0126-SM-47JZ3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.914673
GTEX-UPK5-0006-SM-3GAD8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06249
H3K4me3_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
lateral parabrachial nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.07583
Radial spoke head	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.692
MAPK3	Pathway Commons Protein-Protein Interactions	1.0	null
cell part	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A6M6-01A-11R-A32O-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
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RAB6A	Pathway Commons Protein-Protein Interactions	1.0	null
GSE135705_5_v_3_corticosterone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
RBBP5	ENCODE Transcription Factor Targets	1.0	null
ROCK1	Pathway Commons Protein-Protein Interactions	1.0	null
ELF5-23300383-T47D-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE148252_7_v_6_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-TSE9-0626-SM-3DB8B	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.84688
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
DB-24-CQ08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217406
JJN3	CCLE Cell Line Gene Expression Profiles	1.0	1.50852
TBP_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
identical protein binding	GO Molecular Function Annotations 2015	1.0	null
ChIP_MTF2_20144788	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
nucleus	GO Cellular Component Annotations 2023	1.0	null
cytoplasm	GO Cellular Component Annotations 2015	1.0	null
GSE160817_5_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ERBB2IP	Pathway Commons Protein-Protein Interactions	1.0	null
GRIPAP1	Pathway Commons Protein-Protein Interactions	1.0	null
2858_FAM136A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.606958
sirolimus_homo sapiens_gpl2895_gse16944	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
FB-49-NW04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.16444
NTPCR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19655
BAZ1B	Pathway Commons Protein-Protein Interactions	1.0	null
osteoblasts	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.846999
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4761-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Nuclear lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
PMC5651844-41467_2017_1173_MOESM7_ESM.xlsx-ZZZ3_ChIP-seq_peaks-Unnamed_7_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
CHD2	ENCODE Transcription Factor Targets	1.0	null
POLR2A_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DYNLL1	Pathway Commons Protein-Protein Interactions	1.0	null
1-alkyl-2-acetylglycerophosphocholine esterase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.503
late endosome to vacuole transport via multivesicular body sorting pathway	GO Biological Process Annotations 2025	1.0	null
ZFYVE1	Pathway Commons Protein-Protein Interactions	1.0	null
VZ in caudal hippocampal proper	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.63054
CADM1_Deficiency_GDS2027_722_mouse_Testis	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
CTNNB_Activation (deltaNB-cateninER transgenics)_GDS1560_768_mouse_Skin - 7 Day	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
female reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053789
metabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.4102
Prostate adenocarcinoma_PRAD_TCGA-HC-A6HY-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZWILCH	Pathway Commons Protein-Protein Interactions	1.0	null
RPS6KA3	Pathway Commons Protein-Protein Interactions	1.0	null
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RMND1	Pathway Commons Protein-Protein Interactions	1.0	null
MAX_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of gingiva_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PLEKHG3	Pathway Commons Protein-Protein Interactions	1.0	null
EXPH5	Pathway Commons Protein-Protein Interactions	1.0	null
GSE174735_4_v_3_il22_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-S7PM-0008-SM-3NM9Q	GTEx Tissue Sample Gene Expression Profiles	1.0	1.31715
YY1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168602,GSE168604_2_v_6_selumetinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TE441T	CCLE Cell Line Gene Expression Profiles	1.0	1.44449
GSE231891_5_v_0_cdk8_human	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 Microarray	1.0	0.944768
laterodorsal subdivision of area 8	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.35472
inferolateral temporal cortex (area TEv, area 20)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.833747
17660535-TableS4a	GeneSigDB Published Gene Signatures	1.0	null
FLI1_megakaryocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TMEM86A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.31676
GNAQ	Pathway Commons Protein-Protein Interactions	1.0	null
HSPH1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.48875
H3K4me2_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
protein homodimerization activity	GO Molecular Function Annotations 2023	1.0	null
GTEX-UTHO-0011-R2A-SM-3GIKC	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.74756
posteroventral (inferior) parietal cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09408
H3K4me3_cardiac mesoderm_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
head	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
EKLF-21900194-ERYTHROCYTE-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
inferior occipital gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.36467
Integument	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GTEX-QDVJ-0008-SM-48U2E	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830396
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.46734
Nucleus	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
PMC6987220-41467_2020_14312_MOESM5_ESM.xlsx-P53_Spheres-4_names_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
UBC	Pathway Commons Protein-Protein Interactions	1.0	null
Synucleinopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.104
PMC11979751-table_s1_trajectoryderivation_elad055.xlsx-Cluster_DE_Genes_Summary-Cluster_3_AP1_Up_JUN	Rummagene Transcription Factor Associations 2026	1.0	null
MBD4_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-QEL4-1426-SM-447AC	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00578
ELF5-23300383-T47D-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Malignant astrocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.04
BRD4-25478319-HGPS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5707-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
subunit	GeneRIF Biological Term Annotations	1.0	null
GSE158834_10_v_9_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
viral infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.051454
ARHGEF26	Pathway Commons Protein-Protein Interactions	1.0	null
primary auditory cortex (core)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.938893
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-3.55946
HCC38	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.851223
abnormal embryo size	IMPC Knockout Mouse Phenotypes	1.0	null
BT549	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.681466
ZNF416	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.8203
H3K27ac_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RKN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.979
CDC42BPG	Pathway Commons Protein-Protein Interactions	1.0	null
6611_PPAT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.705358
protein transport	GO Biological Process Annotations 2015	1.0	null
Plasma membrane bounded cell projection cytoplasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.718
E2A	MotifMap Predicted Transcription Factor Targets	1.0	null
NR2C2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	45.5469
STEAP3	Pathway Commons Protein-Protein Interactions	1.0	null
JIMT-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.82595
2790_EXOSC3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.514139
SOX9-25088423-EMBRYONIC-GONADS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
UMC-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.886232
ZNF143	ENCODE Transcription Factor Targets	1.0	null
S2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.343
EP300_GM12878_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_U-87 MG_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PIK3R1	Pathway Commons Protein-Protein Interactions	1.0	null
GNA11	Pathway Commons Protein-Protein Interactions	1.0	null
deferasirox_homo sapiens_gpl570_gds3558	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
IRF8-22096565-GC-B-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
PRKAR2A	Pathway Commons Protein-Protein Interactions	1.0	null
CB-73-HZ47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.280217
HOOK1	Pathway Commons Protein-Protein Interactions	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20N-11A-11R-A14Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
ARFRP1	Pathway Commons Protein-Protein Interactions	1.0	null
ND-68-CU31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237807
GTEX-R55F-0005-SM-2TF4W	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.30529
OSGEP	Pathway Commons Protein-Protein Interactions	1.0	null
amygdaloid complex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.871663
GTEX-R3RS-0008-SM-48FF1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.55081
H3K4me3_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TAP1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE144796_3_v_0_linagliptin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PDXK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.36826
GSE77108_3_v_1_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
physical disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.238752
nuclear part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.042246
phagocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069147
nucleus	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GTEX-UPK5-1226-SM-4IHL8	GTEx Tissue Sample Gene Expression Profiles	1.0	1.57687
YC-32-MB85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.214024
CAOV3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35311
GNB1	Pathway Commons Protein-Protein Interactions	1.0	null
PIK3R4	Pathway Commons Protein-Protein Interactions	1.0	null
GB-64-HC34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.249116
ESCRT-0 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.972
SETDB1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A465-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SOX8	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.9197
POLR2A_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_C91-PL_LPS_vs_DC_Jurkat-DEG_MDDC_C91-PL_LPS_vs_MDDC_Jurkat_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_Pancreatic Islets	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_skeletal muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE115363_2_v_4_esrrb_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
nucleolus	GO Cellular Component Annotations 2015	1.0	null
Nuclear envelope lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.689
GNB2L1	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZMIZ1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	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
YY1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
oculomotor nuclear complex, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.00995
ESCRT-II complex, Vps25 subunit, N-terminal winged helix	InterPro Predicted Protein Domain Annotations	1.0	null
monocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.076324
Centriole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.147
SRF	ENCODE Transcription Factor Targets	1.0	null
Tubular endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.848
anteromedial nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.13378
AB-33-EM56_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.73049
COG5	Pathway Commons Protein-Protein Interactions	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
hematopoietic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053307
PA-75-VL17_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.69593
Ubiquinone biosynthesis complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.162
JUN	ENCODE Transcription Factor Targets	1.0	null
CD4_Memory_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.49962
Central nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
HAUS3	Pathway Commons Protein-Protein Interactions	1.0	null
5746_NOP14_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.502971
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-X4XY-0006-SM-46MV2	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.17771
MAX_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PVOW-0006-SM-3NMB8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.81113
ATP6V1G1	Pathway Commons Protein-Protein Interactions	1.0	null
PLEC	Pathway Commons Protein-Protein Interactions	1.0	null
Atoh1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	28.249
hvps36p	GeneRIF Biological Term Annotations	1.0	null
GTEX-Q2AG-0005-SM-33HBX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.34068
HARBI1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03918
primary visual cortex (striate cortex, area V1/17)_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.18855
GTEX-XLM4-0004-SM-4AT5I	GTEx Tissue Sample Gene Expression Profiles	1.0	1.65181
GSE149123,GSE149128_2_v_0_cdk7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H2795	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.10082
establishment of protein localization to vacuole	GO Biological Process Annotations 2025	1.0	null
TRIM28	ChEA Transcription Factor Targets	1.0	null
GTEX-R55E-0011-R8A-SM-2TC66	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.05458
POLR2A_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HIP1	Pathway Commons Protein-Protein Interactions	1.0	null
SIX5_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE245270_2_v_5_isoproterenol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ASH2L	ChEA Transcription Factor Targets	1.0	null
PTPN6	Pathway Commons Protein-Protein Interactions	1.0	null
496100594_TCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.52089
H3K36me3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10061014-Table5.XLSX-C_vs_LD-Table_S5c_Results_of_gene-wise_analysis_of_cd-ASE_depending_on_LPS_DEX_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
inferior occipital gyrus, right, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.39864
CREB1	ChEA Transcription Factor Targets	1.0	null
Hypertrophy	CTD Gene-Disease Associations	1.0	1.23074
ARF4	Pathway Commons Protein-Protein Interactions	1.0	null
Endolysosome membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.341
PrefrontalCortex	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.38029
bronchial epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.916496
anterior (rostral) cingulate (medial prefrontal) cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00669
metencephalon	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
AB-33-EM56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.94606
TRIM28_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NTERA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.936041
cellular macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
vps20	GeneRIF Biological Term Annotations	1.0	null
skeletalmuscle_c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.30625
GSE175787_5_v_9_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
DIAPH1	Pathway Commons Protein-Protein Interactions	1.0	null
SEC31A	Pathway Commons Protein-Protein Interactions	1.0	null
SNX9	Pathway Commons Protein-Protein Interactions	1.0	null
Perturb_7898_KD_NCL_SRP337780	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.61328
NA-30-HS87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.635482
PMC12769604-13402_2025_1147_MOESM6_ESM.xlsx-Table_S4_3_Venn-Scissor_AND_Prognosis_NOT_Tumor_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
KMS-21BM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.824058
SWAP70	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE158834_7_v_6_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27ac_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NR4A1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.2209
ELF1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
middle frontal gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.05861
intracellular part	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
UBTF	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE198165,GSE198166_7_v_11_zfp266_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
fallopiantube_8c	HPA Tissue Sample Gene Expression Profiles	1.0	1.46876
TSC1	Pathway Commons Protein-Protein Interactions	1.0	null
IGR-37	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GTEX-PWO3-0926-SM-2I5EY	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.933487
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A2I2-01A-11R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1599	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.03707
POLR2A_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOSL2	ENCODE Transcription Factor Targets	1.0	null
GSE226983_2_v_0_ddx5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-4099-01A-02R-1188-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EPB41L2	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_bone marrow macrophage_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EIF2B2	Pathway Commons Protein-Protein Interactions	1.0	null
PD-70-VS77_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.285971
PHLDA3	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHST13	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.25463
GSE158834_7_v_4_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
brain_3c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.3108
mediodorsal nucleus of thalamus_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.0142
ARL2	Pathway Commons Protein-Protein Interactions	1.0	null
hippocampus (hippocampal formation)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.0142
IZ in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.03751
AIDA	Pathway Commons Protein-Protein Interactions	1.0	null
KP-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14319
GSE232472_1_v_2_apoe_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-NL4W-0011-R2a-SM-2I5GV	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.84309
occipital pole, left, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.32533
endosome membrane	GO Cellular Component Annotations 2015	1.0	null
DC-70-EK34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.20024
DCTN3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02584
NPIPB3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.31099
HOPS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.437
GSE115542_5_v_1_digoxin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
VAV2	Pathway Commons Protein-Protein Interactions	1.0	null
PUS1	Pathway Commons Protein-Protein Interactions	1.0	null
regulation of nitrogen compound metabolic process	GO Biological Process Annotations 2015	1.0	null
GSE158834_11_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2820-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
CA-73-BW50_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.713488
RB1_KD_GSE50532_624_human_OSTEOBLASTS	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
H3K4me3_H1 Derived Mesenchymal Stem Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Perturb_750_KD_UHRF1_SRP331230	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-17.1085
Brain Lower Grade Glioma_LGG_TCGA-FG-A6J3-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE151782_2_v_5_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100412_FWM_possible Alzheimer's disease_TBI_87_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-3.35573
SMC3	Pathway Commons Protein-Protein Interactions	1.0	null
HC-01-FD24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.220821
escrt-0 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.457208
GSE135350_3_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A73D-01A-12R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A549_Cerdulatinib_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0100357
GABPA	ENCODE Transcription Factor Targets	1.0	null
MDA-MB-468	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14319
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.75184
GSE232631_5_v_3_brca2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FLI1	ENCODE Transcription Factor Targets	1.0	null
GSE144796_1_v_0_linagliptin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
K562_Bisindolylmaleimide IX_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0157444
THAP11-20581084-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
PRKDC	Pathway Commons Protein-Protein Interactions	1.0	null
VPS35	Pathway Commons Protein-Protein Interactions	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-8472-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
PMC7030939__F7	PFOCR Pathway Figure Associations 2024	1.0	null
negative regulation of signaling receptor activity	GO Biological Process Annotations 2025	1.0	null
outer SZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.24729
NELFE_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZFX_KD_GSE43021_130_human_NOMO1	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
SCC90	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.09875
SCFD2	Pathway Commons Protein-Protein Interactions	1.0	null
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.02
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9H1-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BB-86-BE19_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.52957
H3K4me3_K562_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-SNOS-0003-SM-3NMAO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.998938
GSE139239_2_v_6_ddr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Flagella connector	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.728
COPE	Pathway Commons Protein-Protein Interactions	1.0	null
PMC4278335__F4	PFOCR Pathway Figure Associations 2024	1.0	null
Membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
ESCRT II complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
COPII-coated ER to Golgi transport vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.988
ATF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ARAF	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREB1-20920259-GC1-SPG-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
dorsolateral prefrontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.974765
REST_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-TML8-1326-SM-4DXTO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.22952
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AO-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-G8-6909-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
extracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
H3K4me3_MEL cell line_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CDK5	Pathway Commons Protein-Protein Interactions	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
CHMP1A	Pathway Commons Protein-Protein Interactions	1.0	null
THAP11	ChEA Transcription Factor Targets	1.0	null
mental depression	GWASdb SNP-Disease Associations	1.0	0.55321
IMR32	CCLE Cell Line Gene CNV Profiles	1.0	2.10734
CTCF_MEL cell line_mm9_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4685-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.336728
CTCF_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAPAN1	CCLE Cell Line Gene CNV Profiles	1.0	2.03079
H3K4me3_myocyte_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
GSE224131_3_v_1_mafb_human	RummaGEO Gene Perturbation Signatures	1.0	null
intracellular organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.433801
GA-88-CF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.244607
AGL	Pathway Commons Protein-Protein Interactions	1.0	null
RAB17	Pathway Commons Protein-Protein Interactions	1.0	null
primary motor cortex (area M1, area 4)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.846722
ELK1	ChEA Transcription Factor Targets	1.0	null
TCF7L2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.6972
GTEX-X261-0011-R7A-SM-4E3JJ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.25348
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A5C1-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.95103
CL-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.51205
TAGLN2	Pathway Commons Protein-Protein Interactions	1.0	null
GOLPH3L	Pathway Commons Protein-Protein Interactions	1.0	null
PHB2	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_fibroblast of mammary gland_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ANP32B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03121
CTCF_olfactory bulb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATG7	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_CD14-positive monocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SEL1L	Pathway Commons Protein-Protein Interactions	1.0	null
STX17	Pathway Commons Protein-Protein Interactions	1.0	null
SECISBP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68989
IRF9	Pathway Commons Protein-Protein Interactions	1.0	null
GSE142210_9_v_1_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB-21-FY75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.16319
BB-42-FF52_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.241309
MAX_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-U8T8-0005-SM-3DB8F	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.08208
H3K4me3_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTNNB1	Pathway Commons Protein-Protein Interactions	1.0	null
OVCAR4_OVARY	CCLE Cell Line Proteomics	1.0	2.60471
GTEX-T6MO-0008-SM-4DM6T	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00074
SCYL1	Pathway Commons Protein-Protein Interactions	1.0	null
496100500_PCx_probable Alzheimer's disease_TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-3.03773
2789_EXOSC2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.59912
H3K27ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-XBEC-0006-SM-4AT5T	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.59442
USF1	ENCODE Transcription Factor Targets	1.0	null
GTEX-X638-0003-SM-47JZ1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17273
GSE81803,GSE81912_0_v_5_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.963011
Brain Lower Grade Glioma_LGG_TCGA-DU-A7T6-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
dorsolateral prefrontal cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.15207
Lung adenocarcinoma_LUAD_TCGA-55-1596-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
fgc4	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.96
STAT1	ENCODE Transcription Factor Targets	1.0	null
dorsorostral division of MFC (area 32)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.874081
Colon - Transverse	GTEx Tissue Gene Expression Profiles 2023	1.0	2.40816
ATR_knockdown_120_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.75987
TBK1_druginhibition_188_GSE53658	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.65001
PMC10154349-41418_2023_1142_MOESM6_ESM.xlsx-Sheet1-Supplementary_data_3_Genes_positively_correlated_with_HOXC13-AS_in_skin_granular_cells_correlation_coefficients_cor_0_FDR_0_05_HOXC13	Rummagene Transcription Factor Associations 2026	1.0	null
RTN3	Pathway Commons Protein-Protein Interactions	1.0	null
hindbrain	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
HCC202	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2528
Nuclear inner membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.961
H3K27ac_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-PWN1-1526-SM-48TDA	GTEx Tissue Sample Gene Expression Profiles	1.0	0.859559
OVSAHO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.07334
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.167
Foxf1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	17.2059
GTEX-XBEW-0002-SM-4AT5O	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0925
Alexander Disease_CNS - Brain - Olfactory Bulb (MMHCC)_GSE977	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.43889
OVCA 432	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14431
NUP50	Pathway Commons Protein-Protein Interactions	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 Microarray	-1.0	-1.18475
POLR2AphosphoS2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NELFE_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVMANA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.27682
GTEX-X4XX-2926-SM-3NMB1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.29934
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A25S-01A-11R-A16W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-X62O-0008-SM-46MU5	GTEx Tissue Sample Gene Expression Profiles	1.0	0.900236
striatum_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.07722
ATF3	ENCODE Transcription Factor Targets	1.0	null
CTCF_BJ_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WSU-NHL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.69127
GTEX-RU72-0006-SM-2TF65	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.896134
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A5BY-01A-31R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mediodorsal nucleus of thalamus_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.945807
ZNF354A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	71.458
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-S341-0626-SM-4AD5T	GTEx Tissue Sample Gene Expression Profiles	1.0	0.88721
GSE184902_4_v_1_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE62843,GSE64371_2_v_3_furan_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MCF7_Alendronate sodium trihydrate_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0128106
preoptic region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.02436
FOS::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.0355
CAPAN-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.94221
REST-18959480-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PPP1CA	Pathway Commons Protein-Protein Interactions	1.0	null
WASL	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hel	HPA Cell Line Gene Expression Profiles	-1.0	-1.01716
outer CP in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.875176
GTEX-PLZ4-1626-SM-3P618	GTEx Tissue Sample Gene Expression Profiles	1.0	1.11418
extracellular region	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE154197_1_v_2_ints13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IO-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ESCRT complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
PMC5484972-main.nxml--MAX_MAX	Rummagene Transcription Factor Associations 2026	1.0	null
blood	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053043
Brain Lower Grade Glioma_LGG_TCGA-FG-5963-02A-12R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_10154_KD_ZRSR2_SRP265290	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.55019
Perturb_15594_KD_PPARG_SRP049523	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
organelle part	GO Cellular Component Annotations 2015	1.0	null
CREB1-20920259-GC1-SPG-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC7576810-41419_2020_3099_MOESM9_ESM.xlsx-MS_analysis_EVI1-WT_vs_EVI1-S43-Unnamed_0_MECOM	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UF-27-HS98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.899891
Myocardial Infarction_Myocardial tissue_GSE4105	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.8235
PMC7030939__F7	PFOCR Pathway Figure Associations 2023	1.0	null
CTCF_choroid plexus epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
digits	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.42589
SEPT10	Pathway Commons Protein-Protein Interactions	1.0	null
Septate junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.926
decreased lean body mass	IMPC Knockout Mouse Phenotypes	1.0	null
GSE126463_0_v_2_pomalidomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC4579349-supp_29.18.1915_Table_S9.xlsx-DOWN_GATA3_upperQ-Unnamed_0_GATA3	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-OHPN-0011-R4A-SM-2I5FD	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.65615
715_AURKB_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00322
TMEM18	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.17187
SNAP23	Pathway Commons Protein-Protein Interactions	1.0	null
mediodorsal nucleus of thalamus_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.94041
H3K4me3_Brain Germinal Matrix	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Daltons lymphoma ascites cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.597
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A7OP-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE199081_0_v_1_insr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
negative regulation of signaling receptor activity	GO Biological Process Annotations 2023	1.0	null
PMC3489783__F3	PFOCR Pathway Figure Associations 2024	1.0	null
MAD2L1	Pathway Commons Protein-Protein Interactions	1.0	null
BCLAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_GM19193_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cell part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Prostate adenocarcinoma_PRAD_TCGA-EJ-7325-01B-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DC-51-WE27_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.694599
H3K4me2_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
DETROIT 562	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32241
regulation of cellular macromolecule biosynthetic process	GO Biological Process Annotations 2015	1.0	null
ELK4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.1888
GSE206729_2_v_0_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
red nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.872083
cervical cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.102551
fertilizedegg	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.01084
lateral hypothalamic area, mammillary region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.919532
TBP_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IZ in posterosuperior (dorsal) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.61442
GSE240645_1_v_0_u90926_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DAUDI	COSMIC Cell Line Gene Mutation Profiles	1.0	null
PMC4595011-pgen.1005555.s003.xlsx-BPTF_DOWN-regulated-Gene_name_BPTF	Rummagene Transcription Factor Associations 2026	1.0	null
Amyotrophic lateral sclerosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.121
MTA3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
U-937	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.82595
mitochondrion	GO Cellular Component Annotations 2015	1.0	null
CTCF_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188870,GSE188871_1_v_5_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
7404_RNPC3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.554891
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.262
Autosomal genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.044
TEN	CCLE Cell Line Gene Expression Profiles	1.0	2.31419
CTCF_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ONECUT1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.652
ESS-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.57227
GSE158834_10_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ATP6V1C1	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_GM12875_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE114883_1_v_5_romidepsin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-VUSG-0626-SM-4KL1Z	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.853008
intracellular organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.471208
RELA_GM15510_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WWYW-0005-SM-3NB3K	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.1465
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-3.60101
AP-3 adaptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.947
YY1_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFIC_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SLC30A9	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AHNAK	Pathway Commons Protein-Protein Interactions	1.0	null
IF-87-AU84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.6261
GTEX-OHPN-0011-R7A-SM-2I5FI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.898516
rectum_8c	HPA Tissue Sample Gene Expression Profiles	1.0	1.09314
GTEX-OHPN-0011-R11A-SM-2I5FM	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.14085
CTCF_retinal pigment epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-T2IS-0426-SM-32QPE	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.4561
FOXM1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hematopoietic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054361
cerebellar cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.880283
GSE142210_4_v_6_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
brain	GTEx Tissue Gene Expression Profiles	-1.0	-1.70956
ARHGEF1	Pathway Commons Protein-Protein Interactions	1.0	null
A-673	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.43328
H3K79me2_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
decitabine_homo sapiens_gpl570_gse30985	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
ZNF384_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAP1GDS1	Pathway Commons Protein-Protein Interactions	1.0	null
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.953825
SNU-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.11271
NANOG	ChEA Transcription Factor Targets	1.0	null
EZH2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ITPK1	Pathway Commons Protein-Protein Interactions	1.0	null
NFF	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	1.0	1.13496
Adrenocortical carcinoma_ACC_TCGA-OR-A5JQ-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PDS5A	Pathway Commons Protein-Protein Interactions	1.0	null
PHF8-20622854-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
SNU738	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32437
JHH-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.14838
GB-06-BA49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.27111
intracellular organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
HUP-T3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.58964
GTEX-WHSE-0011-R11A-SM-3P5YY	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.927154
GF-37-MB64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.371496
Esrrg	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	20.1149
SLC25A33	Pathway Commons Protein-Protein Interactions	1.0	null
GSE169205_4_v_7_sirt5_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE125014_1_v_2_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_7329_OE_MOV10_SRP120600	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.64168
GTEX-Q2AI-1526-SM-3GIJ3	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.895532
IQGAP1	Pathway Commons Protein-Protein Interactions	1.0	null
PML_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GLCCI1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.39507
cellular nitrogen compound biosynthetic process	GO Biological Process Annotations 2015	1.0	null
GTEX-XMD1-2826-SM-4AT5F	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.49412
H3K4me3_foreskin fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00238
Bladder Urothelial Carcinoma_BLCA_TCGA-XF-A8HF-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE145215_0_v_3_krt13_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-QDVJ-0005-SM-2TC5X	GTEx Tissue Sample Gene Expression Profiles	1.0	0.864998
POLR2AphosphoS2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SPI1-26923725-CHIP-SEQ-MACROPHAGESS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-WEY5-0001-SM-3P61Z	GTEx Tissue Sample Gene Expression Profiles	1.0	1.6553
GSE81803,GSE81912_0_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE231891_1_v_0_cdk8_human	RummaGEO Gene Perturbation Signatures	1.0	null
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.10596
POLR2A_K562_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAMA-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.987315
ARL1	Pathway Commons Protein-Protein Interactions	1.0	null
IZ in midcingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.894736
NCI-H1882	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.870363
H3K4me2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE152666,GSE152668_2_v_1_carm1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
STARD5	Pathway Commons Protein-Protein Interactions	1.0	null
H3K79me2_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Ppara	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.6775
SNU-423	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.03718
DCTN2	Pathway Commons Protein-Protein Interactions	1.0	null
HNF1B	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.7882
VMRC-LCD	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884804
MYBL2	ENCODE Transcription Factor Targets	1.0	null
BD-61-OO16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.53714
PPP1R9B	Pathway Commons Protein-Protein Interactions	1.0	null
kidney cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.084988
Seta	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.932
ETS1	ENCODE Transcription Factor Targets	1.0	null
GTEX-QCQG-0526-SM-48U2A	GTEx Tissue Sample Gene Expression Profiles	1.0	1.37423
7479_RPL7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.580865
nucleus	GO Cellular Component Annotations 2025	1.0	null
GSE211128_3_v_6_angptl4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
A549_AICAR_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0140637
JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFG8-0001-SM-4LVN8	GTEx Tissue Sample Gene Expression Profiles	1.0	1.38414
skeletalmuscle_e	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.15746
H3K4me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
establishment of protein localization	GO Biological Process Annotations 2015	1.0	null
central medullary reticular group, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.67763
GTEX-UPK5-0003-SM-3NMDI	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03444
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
SNTB2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE114690_1_v_0_tnfsf14_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZNF558	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	110.598
FE-82-WB22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-5.59454
GTEX-S7PM-0006-SM-3NM8C	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.23662
ppard_23093780_pancreatic_beta_cells_lof_mouse_gpl1261_gds4320	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.112999
Organelle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.416
H3K4me3_CH12.LX_mm9_5	ENCODE Histone Modification Site Profiles	1.0	null
lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.050982
GTEX-S7SF-0926-SM-4AD4M	GTEx Tissue Sample Gene Expression Profiles	1.0	1.74391
POLR2A_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZE-45-CG69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.270636
Melanoblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.636
CTCF_fibroblast of upper leg skin_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EGFR_drugactivation_19_GDS2146	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-0.699574
dorsal thalamus_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.25839
TRRAP	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-WRHU-1026-SM-4E3ID	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.90799
NCIH1563	CCLE Cell Line Gene CNV Profiles	1.0	2.32803
negative regulation of epidermal growth factor receptor signaling pathway	GO Biological Process Annotations 2023	1.0	null
abnormal outer ear morphology	MGI Mouse Phenotype Associations 2023	1.0	null
RFX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.3857
inferior olive, principal nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.846494
Skin Cutaneous Melanoma_SKCM_TCGA-FW-A3TU-06A-11R-A239-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HLA-C	Pathway Commons Protein-Protein Interactions	1.0	null
KYSE-180	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.70863
GSE174735_1_v_3_il22_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
superior occipital gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.4489
CDK11A	Pathway Commons Protein-Protein Interactions	1.0	null
APLP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1904
DGKK	Pathway Commons Protein-Protein Interactions	1.0	null
PLA2G4B	Pathway Commons Protein-Protein Interactions	1.0	null
Adrenocortical carcinoma_ACC_TCGA-OR-A5JE-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-T5JC-0011-R2A-SM-32PLZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.07811
hsa-miR-3065-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.361556
GTEX-XGQ4-0008-SM-4AT3Z	GTEx Tissue Sample Gene Expression Profiles	1.0	1.28625
organelle membrane	GO Cellular Component Annotations 2015	1.0	null
GSE158834_10_v_9_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
7178_RBM48_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.624544
GTEX-Q2AI-0826-SM-48TZO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.82711
FOXC2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	66.9094
RAB33B	Pathway Commons Protein-Protein Interactions	1.0	null
AA-67-TF79_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.236478
posterior orbital gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.895588
GTEX-POMQ-0826-SM-3P61H	GTEx Tissue Sample Gene Expression Profiles	1.0	0.88412
Lung squamous cell carcinoma_LUSC_TCGA-66-2778-01A-02R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-X4XY-0226-SM-4E3IZ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.933789
GTEX-NFK9-1126-SM-3LK78	GTEx Tissue Sample Gene Expression Profiles	1.0	0.878427
OSBPL10	Pathway Commons Protein-Protein Interactions	1.0	null
TRIM28	ENCODE Transcription Factor Targets	1.0	null
SCAMP2	Pathway Commons Protein-Protein Interactions	1.0	null
cell part	GO Cellular Component Annotations 2015	1.0	null
ATF2	ENCODE Transcription Factor Targets	1.0	null
POLR2AphosphoS5_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GIGYF2	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
cerebellar cortex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.71587
HCC2688	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.34787
GTEX-RWS6-0001-SM-3NMAL	GTEx Tissue Sample Gene Expression Profiles	1.0	1.19775
AD-29-IG16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.252001
ChIP_ZFP42_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GTEX-X4EP-0005-SM-3P5ZE	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.02586
inferior frontal gyrus, triangular part, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.17215
RCOR1	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-4649-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
GSE147959,GSE147960_5_v_3_stat1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLE	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.44892
GTEX-RVPU-0005-SM-2TF6L	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.59291
MINK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61536
GTEX-PWN1-0008-SM-48TEA	GTEx Tissue Sample Gene Expression Profiles	1.0	0.955617
OE-78-XD40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.923692
JARID1A-20064375-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-TMMY-0626-SM-33HBD	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.938403
IX, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.10384
SCFD1	Pathway Commons Protein-Protein Interactions	1.0	null
HCC1319	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
PMC10795826-jciinsight-8-170518-s128.xlsx-Fig_5B-Gene_Regulated_by_VDR_VDR	Rummagene Transcription Factor Associations 2026	1.0	null
PDCD6	Pathway Commons Protein-Protein Interactions	1.0	null
Sarcoma_SARC_TCGA-FX-A3TO-01A-11R-A22K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K9ac_Breast Myoepithelial Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
IZ in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.29455
hsa-miR-29c	TargetScan Predicted Conserved microRNA Targets	1.0	0.107229
Kidney renal papillary cell carcinoma_KIRP_TCGA-G7-6795-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-X5EB-0004-SM-46MWA	GTEx Tissue Sample Gene Expression Profiles	1.0	0.893182
DD-36-YH76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-5.26957
cellular biosynthetic process	GO Biological Process Annotations 2015	1.0	null
EIF2B4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28214
SMAD2	Pathway Commons Protein-Protein Interactions	1.0	null
DD-43-WW40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.224992
Inner dynein arm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.437
3869_HNRNPK_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.500765
VTA1	Pathway Commons Protein-Protein Interactions	1.0	null
ARHGAP1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE181513_2_v_1_usp7_human	RummaGEO Gene Perturbation Signatures	1.0	null
diethylstilbestrol_mus musculus_gpl81_gse1839	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
H3K4me3_Fetal Brain	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-6742-01A-11R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.007
H3K27ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CD8_Naive_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.11557
GTEX-QEG4-0008-SM-48TYZ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.932405
GTEx AdrenalGland 20-29 vs 60-69	GTEx Tissue-Specific Aging Signatures	-1.0	-3.52515
GSE48812_9_v_1_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MCF7_Fasudil_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0130944
LK2	CCLE Cell Line Gene Expression Profiles	1.0	1.75715
Microtubule bundle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.714
STARD10	Pathway Commons Protein-Protein Interactions	1.0	null
ARHGAP17	Pathway Commons Protein-Protein Interactions	1.0	null
Vdr	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	15.9695
H3K79me2_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE94814_2_v_0_reck_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.022
hsa-miR-4533	TargetScan Predicted Conserved microRNA Targets	1.0	0.31417
LEMD3	Pathway Commons Protein-Protein Interactions	1.0	null
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.8692
primary auditory cortex (core)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.32774
BLOC1S6	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
496100505_TCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.69117
H3K4me3_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
winged	GeneRIF Biological Term Annotations	1.0	null
CTCF_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE88819_1_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ERBB2_druginhibition_8_GDS2139	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	3.00552
CENPV	Pathway Commons Protein-Protein Interactions	1.0	null
CL-11	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.17909
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9GY-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cytosol	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
POU4F3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.7214
cervical cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.105651
EP300_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ARFGEF2	Pathway Commons Protein-Protein Interactions	1.0	null
Hydrocephalus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.135
NCIH211	CCLE Cell Line Gene CNV Profiles	1.0	1.43851
GTEX-PVOW-1626-SM-48TC9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.75284
H3K4me3_cardiac mesoderm_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-OHPN-0011-R2A-SM-2I5FB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.60175
CHP-212	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.87778
scapular bone foramen	MGI Mouse Phenotype Associations 2023	1.0	null
endosome membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.67204
ARHGAP18	Pathway Commons Protein-Protein Interactions	1.0	null
basophil	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.286736
GATA1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
PMC8238961-41467_2021_23899_MOESM5_ESM.xlsx-TG_MODEL4_AA-UCSC_RefGene_Name_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
STAT3	ENCODE Transcription Factor Targets	1.0	null
GTEX-N7MS-0011-R7a-SM-2HMKN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.929533
POU5F1-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
urinary system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.061079
AKT1S1	Pathway Commons Protein-Protein Interactions	1.0	null
Disease by infectious agent	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.559
PMC4595011-pgen.1005555.s001.xlsx-BPTF_DOWN-regulated-Gene_name_BPTF	Rummagene Transcription Factor Associations 2026	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-DA-A1I0-06A-11R-A20F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC11109217-41420_2024_2017_MOESM3_ESM.xlsx-Fig_4H_TAF2-bound_genes-Tag_dentsity_of_TBP_ChIP-seq_signal_for_TAF2-bound_genes_in_Fig_4H_TBP	Rummagene Transcription Factor Associations 2026	1.0	null
Transcription factor TFIID complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.885
mediodorsal nucleus of thalamus_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.51173
H3K4me3_kidney epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.33174
GSE142210_4_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
SK-BR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32948
rostral ventral respiratory cell group	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.17336
H2AFZ_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1346_CCT2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.612264
early endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.518981
TP63-30713093-EPITHELIAL-HUMAN-TONGUE-SCC	ChEA Transcription Factor Targets 2022	1.0	null
MYO7B	Pathway Commons Protein-Protein Interactions	1.0	null
REST_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Penis Foreskin Keratinocyte Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Visceral heterotaxy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.393
GTEX-X261-0326-SM-3NMD4	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.33908
GNAI3	Pathway Commons Protein-Protein Interactions	1.0	null
dorsal thalamus_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.01195
GTEX-PX3G-0008-SM-48U2L	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1538
PRKCD	Pathway Commons Protein-Protein Interactions	1.0	null
Dementia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.076
TMED10	Pathway Commons Protein-Protein Interactions	1.0	null
2792_EXOSC5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.629905
H4K5ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
NCI-H2122	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.877385
LC1F	CCLE Cell Line Gene CNV Profiles	1.0	1.49542
preaxial polydactyly	MGI Mouse Phenotype Associations 2023	1.0	null
RPL35	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18289
wing disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.874016
PMC6138639-41467_2018_6247_MOESM4_ESM.xlsx-S1_10_ZZZ3_ChIP-seq_in_shNT-Nearest_TSS_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-OIZG-1026-SM-3LK5X	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03114
POLR2A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inferior olive, medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.865243
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-4642-01B-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
bounding membrane of organelle	GO Cellular Component Annotations 2015	1.0	null
Endomembrane system	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.445
19962670-TableS2	GeneSigDB Published Gene Signatures	1.0	null
GSE231648_1_v_2_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-X585-0002-SM-46MVA	GTEx Tissue Sample Gene Expression Profiles	1.0	1.77011
GTEX-XOTO-2126-SM-4B64U	GTEx Tissue Sample Gene Expression Profiles	1.0	1.33729
GSE140607_0_v_6_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PD-70-VS77_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.5859
SRF_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELK1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HF-91-IU60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.23095
PMC8283158-mmc2.xlsx-TCF4_Glut-Gene_TCF4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-OOBJ-0008-SM-3NB26	GTEx Tissue Sample Gene Expression Profiles	1.0	1.68313
ASH-3	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.67385
GTEX-S7SF-1626-SM-3K2AY	GTEx Tissue Sample Gene Expression Profiles	1.0	0.993452
ACHN	CCLE Cell Line Gene Expression Profiles	1.0	1.46283
H3K4me3_BJ_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-Q2AG-0011-R8A-SM-2HMK5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.887098
GPRC5A	Pathway Commons Protein-Protein Interactions	1.0	null
c-MYC_KD_GDS2526_112_human_MCF-7 BREAST CANCER cell line	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Perturb_3209_KD_CNOT3_SRP117693	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
968_C12ORF60_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.51162
primary auditory cortex (core)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.28148
GTEX-X585-2426-SM-46MW2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.83666
GTEX-WHPG-0004-SM-3NMDO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.866187
TBX5-21415370-HL-1-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Motile cilium	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.454
EPHB2	Pathway Commons Protein-Protein Interactions	1.0	null
FLI1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
BE-79-QU25_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.298351
HDAC2	ENCODE Transcription Factor Targets	1.0	null
ZR7530	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-2.89476
HDAC2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FBXO30	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05736
LLPH	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.58858
Cardiac Hypertrophy_Myocardial tissue_GSE1621	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.68669
EHD4	Pathway Commons Protein-Protein Interactions	1.0	null
protein n-terminus binding	GO Molecular Function Annotations 2015	1.0	null
CBX3_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDAMB453	CCLE Cell Line Gene CNV Profiles	-1.0	-2.0494
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7183-11A-01R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Intracellular organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
TBCD	Pathway Commons Protein-Protein Interactions	1.0	null
FGD4	Pathway Commons Protein-Protein Interactions	1.0	null
intracellular organelle lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.096333
H3K4me3_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
RFX5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mesothelioma_MESO_TCGA-TS-A7P6-01A-21R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6853299-pbio.3000476.s011.xlsx-Fig_4A-RA_812_genes_expression_ratio_in_ZF_and_OF_CREBZF	Rummagene Transcription Factor Associations 2026	1.0	null
FOXD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	85.1717
Membrane Trafficking(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
DST	Pathway Commons Protein-Protein Interactions	1.0	null
IST1	Pathway Commons Protein-Protein Interactions	1.0	null
SNF8	Pathway Commons Protein-Protein Interactions	1.0	null
CCDC124	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.84607
heterocycle metabolic process	GO Biological Process Annotations 2015	1.0	null
GTEX-WFON-0226-SM-3GIKR	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.947462
SLC7A6OS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1276
HEC-1-A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21355
Clathrin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.788
CB-49-OG36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.433254
MB-46-BT89_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.386807
H3K4me3_CD19 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
striatum_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.07147
TEAD4_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IRF8-22096565-GC-B-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE174498,GSE174500_2_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-U3ZN-2126-SM-4DXU1	GTEx Tissue Sample Gene Expression Profiles	1.0	0.865908
GTEX-N7MS-0007-SM-2D7W1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.14318
EIF2B4	Pathway Commons Protein-Protein Interactions	1.0	null
EXOC8	Pathway Commons Protein-Protein Interactions	1.0	null
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventrolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.55115
mediodorsal nucleus of thalamus_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.56054
mediodorsal nucleus of thalamus_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.09276
PHF8_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MKN-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.994528
AA-58-FJ71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.08129
mandible hypoplasia	MGI Mouse Phenotype Associations 2023	1.0	null
POU2F2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELK1_01_162	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	9.93891
MYBL2_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TELO2	Pathway Commons Protein-Protein Interactions	1.0	null
GM2A	Pathway Commons Protein-Protein Interactions	1.0	null
GABPA_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCT-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
SPI1	ChEA Transcription Factor Targets	1.0	null
Lung adenocarcinoma_LUAD_TCGA-91-8499-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KDM5B-21448134-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
REST-18959480-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
USF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5781
GTEX-X4EO-0006-SM-3P5ZF	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.924525
extracellular vesicular exosome	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Lung adenocarcinoma_LUAD_TCGA-38-4628-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YY1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_MCF-7_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-VJYA-0726-SM-4KL1T	GTEx Tissue Sample Gene Expression Profiles	1.0	1.2103
GTEX-SNMC-1526-SM-2XCFN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.923656
TOM1	Pathway Commons Protein-Protein Interactions	1.0	null
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.85988
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-Q1-A5R2-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-PWCY-0008-SM-48TE9	GTEx Tissue Sample Gene Expression Profiles	1.0	0.942799
COPZ1	Pathway Commons Protein-Protein Interactions	1.0	null
ELL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.43488
Cytoplasmic vesicle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
H3K4me3_MCF-7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
TP53	ChEA Transcription Factor Targets	1.0	null
HCC366	CCLE Cell Line Gene Expression Profiles	-1.0	-2.34223
cytoplasmic part	LOCATE Predicted Protein Localization Annotations	1.0	null
RARB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1552
RD-90-OY66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.49085
H3K4me1_CD8 Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SMC3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XGQ4-0004-SM-4AT5S	GTEx Tissue Sample Gene Expression Profiles	1.0	1.7116
Retinitis pigmentosa 56	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.233
CDX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.0729
TBL1XR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCLAF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-T5JC-0011-R11A-SM-32PMB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.13809
RBPJ-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
SH3GL2	Pathway Commons Protein-Protein Interactions	1.0	null
GM12878	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.00542
cerebellar cortex_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.39894
GTEX-WZTO-0426-SM-3NM99	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.05813
OAW42	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.093
REST_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE215086_0_v_2_batf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-U3ZM-0526-SM-4DXTB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.935368
GTEX-WHSE-0006-SM-3NMBW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.66664
embryo	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.235748
abnormality of nervous system physiology	GWASdb SNP-Phenotype Associations	1.0	0.05324
GTEX-T6MN-0011-R8A-SM-32QP3	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.02765
EA-18-FP00_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.708886
GTEX-O5YU-0008-SM-4E3I7	GTEx Tissue Sample Gene Expression Profiles	1.0	0.964612
hippocampus (hippocampal formation)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.900448
RAD21_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cochlear nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.06078
MYC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
epidermal cell	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE57871_11_v_12_vorinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-AAUZ-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
USF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-Q2AI-0926-SM-48U1F	GTEx Tissue Sample Gene Expression Profiles	1.0	1.07295
VDR-23849224-CD4+-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
FA-36-VA24_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.402354
KA-81-AG66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.81375
PMC4519954__F13	PFOCR Pathway Figure Associations 2024	1.0	null
ELAVL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.11894
GTEX-NPJ8-0007-SM-2D7VX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.30778
JC-06-ED36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.275484
GSE143955_1_v_2_ripk1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KDM4A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-5899-01A-11R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE175787_4_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-XQ3S-0126-SM-4BOO9	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.864213
Vacuolar membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.472
PML_K562_hg19_1	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 RNA-seq	1.0	1.47423
GCC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00886
posteroventral (inferior) parietal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.26754
H3K4me3_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
CTSA	Pathway Commons Protein-Protein Interactions	1.0	null
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.157
PMC12586162-41593_2025_2050_MOESM3_ESM.xlsx-Supplementary_Table_7-ELK4_all_ELK4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-NPJ8-0011-R1a-SM-33HCB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.83137
H3K4me2_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
496100472_PCx_possible Alzheimer's disease_TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.02912
H3K4me3_WI38_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_keratinocyte_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-R45C-0006-SM-3GAD6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-3.10586
GSE128232,GSE128233_1_v_0_phf2_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-3689c	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
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	2.38762
Whole body	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
TC71	CCLE Cell Line Gene CNV Profiles	-1.0	-1.5332
Infectious disease	Reactome Pathways 2024	1.0	null
CHEK1	Pathway Commons Protein-Protein Interactions	1.0	null
hvps25p	GeneRIF Biological Term Annotations	1.0	null
CDK4_knockdown_85_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.65848
A549_JNJ-26854165_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0157745
WDR92	Pathway Commons Protein-Protein Interactions	1.0	null
DMKN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24333
testosterone_mus musculus_gpl1261_gse17553	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE70499_3_v_2_bmal1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CD2BP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00387
POU2F2_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
brain	HPA Tissue Gene Expression Profiles	-1.0	-0.897874
CTCF_astrocyte of the spinal cord_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-TKQ2-1026-SM-33HB7	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.946552
CKAP5	Pathway Commons Protein-Protein Interactions	1.0	null
PMC6138639-41467_2018_6247_MOESM4_ESM.xlsx-S1_11_ZZZ3_ChIP-seq_in_shZZZ3-Nearest_TSS_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE213153_1_v_0_ulixertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SH2D3A	Pathway Commons Protein-Protein Interactions	1.0	null
GSE142210_2_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
STAT5A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DUSP3	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_HeLa-S3_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.233
Flemming body	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.319
GTEX-OXRP-2326-SM-2S1NL	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.0179
Lung adenocarcinoma_LUAD_TCGA-55-8094-01A-11R-2241-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
primary visual cortex (striate cortex, area V1/17)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.3024
MKN45	CCLE Cell Line Gene CNV Profiles	1.0	1.41539
KALS-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.77934
Parkinson's disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.089
AE-51-ZO26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.267487
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.889136
GTEX-XOTO-0011-R5A-SM-4B657	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.94505
RHOG	Pathway Commons Protein-Protein Interactions	1.0	null
CLTC	Pathway Commons Protein-Protein Interactions	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-4506-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
STX4	Pathway Commons Protein-Protein Interactions	1.0	null
WASF2	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
CTCF_fibroblast of villous mesenchyme_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SN8G-0001-SM-3NM8L	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0145
GTEX-U3ZN-0002-SM-3NMDF	GTEx Tissue Sample Gene Expression Profiles	1.0	1.46127
regulation of transcription, dna-templated	GO Biological Process Annotations 2015	1.0	null
H3K27ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
JHOC5	CCLE Cell Line Gene Expression Profiles	1.0	2.09091
H3K4me3_HeLa-S3_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-SSA3-0002-SM-3P61R	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02108
XE-18-BC97_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.210635
569_ASB8_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.514298
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-GV_RFX-Unnamed_1_RFX1	Rummagene Transcription Factor Associations 2026	1.0	null
macromolecular complex	GO Cellular Component Annotations 2015	1.0	null
USH1C	Pathway Commons Protein-Protein Interactions	1.0	null
anterior nucleus of pulvinar	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.969585
Cerebral degeneration	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.126
GTEX-WFJO-0002-SM-3P61X	GTEx Tissue Sample Gene Expression Profiles	1.0	2.12089
EBNA2-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-UTHO-0011-R4A-SM-3GIJP	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.49608
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.20626
GTEX-XLM4-0011-R2B-SM-4AT5Z	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.856184
EXOC5	Pathway Commons Protein-Protein Interactions	1.0	null
PAX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DYNC1I2	Pathway Commons Protein-Protein Interactions	1.0	null
abnormal scapula morphology	MGI Mouse Phenotype Associations 2023	1.0	null
Perturb_6097_KD_ZNF438_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
H3K9ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Intracellular vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055276
AC-05-MR83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.68325
abducens nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.16393
cellular aromatic compound metabolic process	GO Biological Process Annotations 2015	1.0	null
CEBPB-26923725-CHIP-SEQ-MACROPHAGESS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
TZM-bl cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.747
POLR2A_erythroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PBX3	ENCODE Transcription Factor Targets	1.0	null
NCI-H28	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.972661
VN1R1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62832
NCI-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.17278
EGR1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC515	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2528
VIPAS39	Pathway Commons Protein-Protein Interactions	1.0	null
GTF2B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPARG-20887899-3T3-L1-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
CTCF_spleen_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EPRS	Pathway Commons Protein-Protein Interactions	1.0	null
bed  nucleus of stria terminalis, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.27954
orbital frontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.32768
GSE125862_2_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Sarcoma_SARC_TCGA-FX-A48G-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-A6IZ-01A-11R-A31N-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	1.01805
POLR2A_GM19099_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4474670__F3	PFOCR Pathway Figure Associations 2023	1.0	null
H3K4me1_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
OSBPL11	Pathway Commons Protein-Protein Interactions	1.0	null
GSE234637_3_v_0_cytarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
1469_CEBPG_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.645801
CTCF_BE2C_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCLAF1	ENCODE Transcription Factor Targets	1.0	null
GTEX-XUYS-0002-SM-47JXL	GTEx Tissue Sample Gene Expression Profiles	1.0	2.72781
4953_MED30_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.662305
K562_Daphnetin_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0192544
HCC1143	CCLE Cell Line Gene CNV Profiles	-1.0	-1.53334
GTEX-PVOW-0011-R1A-SM-32PL6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.926166
ZNF652	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.9071
Lung squamous cell carcinoma_LUSC_TCGA-66-2754-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Nucleoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
H3K4me3_GM12864_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TCF7L2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POU4F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	44.2654
PPARG	ChEA Transcription Factor Targets	1.0	null
H3K4me3_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RP1_KO_GDS1845_190_mouse_Retinas	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE140997_10_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ANXA1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE188870,GSE188871_1_v_3_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DCP1A	ChEA Transcription Factor Targets	1.0	null
H3K4me3_fibroblast of pedal digit skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.051883
H3K4me3_skeletal muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
bounding membrane of organelle	GO Cellular Component Annotations 2025	1.0	null
SOX9	ChEA Transcription Factor Targets	1.0	null
cytoplasmic part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.618406
ELF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.5564
RIF1	Pathway Commons Protein-Protein Interactions	1.0	null
SK-N-SH	COSMIC Cell Line Gene Mutation Profiles	1.0	null
NUGC-3	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.83185
CTCF_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hmx3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	30.8963
GTEX-NPJ8-0011-R11A-SM-2YUMS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.95191
Sorting endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.085
Skin Cutaneous Melanoma_SKCM_TCGA-QB-A6FS-06A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ommatidium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.8
Endocytosis	KEGG Pathways 2026	1.0	null
RABL6	Pathway Commons Protein-Protein Interactions	1.0	null
HCFC1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
pparb_23093780_pancreas_lof_mouse_gpl1261_gds4320	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.112999
PMC4944136-srep28995-s2.xls-OTX2-gene_OTX2	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-RWSA-0008-SM-47JYX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.926329
GTEX-OXRO-0011-R9A-SM-3NB1X	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.01735
escrt i complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.74383
acquired immunodeficiency syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.254888
Bud	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.015
POU2F2	ENCODE Transcription Factor Targets	1.0	null
CLN5	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-POYW-1326-SM-48TCG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.22182
primary somatosensory cortex (area S1, areas 3,1,2)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.72547
Acute Myeloid Leukemia_LAML_TCGA-AB-2956-03A-01T-0740-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CAOV-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.27333
WT1-25993318-PODOCYTE-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
H3ac_C2C12_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ATF3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KIAA1033	Pathway Commons Protein-Protein Interactions	1.0	null
SCAMP3	Pathway Commons Protein-Protein Interactions	1.0	null
intracellular	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.427104
CTCF_fibroblast of skin of abdomen_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of pedal digit skin_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YA-78-MS95_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.659039
PSAP	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_fibroblast of lung_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
ILK	Pathway Commons Protein-Protein Interactions	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-XG-A823-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H1299	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2528
mammillary body, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.0071
primary motor cortex (area M1, area 4)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-3.41185
TAF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHMP6	Pathway Commons Protein-Protein Interactions	1.0	null
ADAM17	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28908
GTEX-S95S-0002-SM-3NM8K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.26341
KY821	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.54049
GSE112962,GSE112963_2_v_1_ddx5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GRB2	Pathway Commons Protein-Protein Interactions	1.0	null
posteroventral (inferior) parietal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.46193
H3K4me1_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_foreskin fibroblast_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hair follicle	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PMC4595011-pgen.1005555.s001.xlsx-BPTF_DOWN-regulated-Ensembl_gene_id_BPTF	Rummagene Transcription Factor Associations 2026	1.0	null
TUHR14TKB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.50753
DNM2	Pathway Commons Protein-Protein Interactions	1.0	null
A375	CCLE Cell Line Gene Expression Profiles	1.0	1.40147
primary somatosensory cortex (area S1, areas 3,1,2)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.71113
Rectum adenocarcinoma_READ_TCGA-DC-6155-01A-11R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SETDB1	ENCODE Transcription Factor Targets	1.0	null
vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
POLR2AphosphoS5_GM12892_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
colorectal cancer cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	1.0	1.94844
2790_EXOSC3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.720476
CTCF_GM12872_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7437
POU2F2_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-TMZS-0001-SM-3P61Q	GTEx Tissue Sample Gene Expression Profiles	1.0	1.64037
brain_a	HPA Tissue Sample Gene Expression Profiles	-1.0	-0.847779
GSE165682_4_v_3_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE169152_3_v_7_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9443_TWISTNB_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.600606
USF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAP2K3	Pathway Commons Protein-Protein Interactions	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-6872-01A-11R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_cardiac muscle cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A3IT-01A-31R-A20F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6138639-41467_2018_6247_MOESM4_ESM.xlsx-S1_2_ZZZ3_occupied_genes-ATAC1_bound_genes_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
SOX17_OE_GDS3300_124_human_HESC (CA1 and CA2)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
RAB11B	Pathway Commons Protein-Protein Interactions	1.0	null
PMC8650352-JCB_202012097_DataS1.xlsx-VHL_KD_filteredProteinGroups-Gene_names_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-R55E-1326-SM-48FCR	GTEx Tissue Sample Gene Expression Profiles	1.0	2.46292
7441_RPL17_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.700685
H3K4me3_fibroblast of upper leg skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ZZZ3	ENCODE Transcription Factor Targets	1.0	null
ATP5IF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.09405
hsa-miR-1289	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
STX7	Pathway Commons Protein-Protein Interactions	1.0	null
FOS	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.717
primary motor cortex (area M1, area 4)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.07506
H3K79me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-T6MN-0005-SM-32PLJ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.71743
BRCA1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VPS36	Pathway Commons Protein-Protein Interactions	1.0	null
PLEKHA5	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-TSE9-2926-SM-3DB77	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.17194
GTEX-X5EB-1826-SM-4E3K8	GTEx Tissue Sample Gene Expression Profiles	1.0	1.18177
AC-28-RT00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.381355
BC-10-SB73_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.20006
Axonemal outer doublet	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.344
RAB5A	Pathway Commons Protein-Protein Interactions	1.0	null
TBX20-22328084-HEART-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
central nucleus of inferior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.78477
H3K4me3_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE139540_4_v_1_menadione_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE142210_3_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ventrolateral prefrontal cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.946911
septal nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.30749
5163_MPHOSPH10_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.505568
CTCF_foreskin fibroblast_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-T5JC-2326-SM-32PMR	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.13692
SKLMS1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.97885
MA-104 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.843
H3K4me3_fibroblast of mammary gland_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-S33H-0826-SM-4AD5Y	GTEx Tissue Sample Gene Expression Profiles	1.0	1.61307
establishment of protein localization to vacuole	GO Biological Process Annotations 2023	1.0	null
FOSL2_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PRKAB1	Pathway Commons Protein-Protein Interactions	1.0	null
PPP2R2A	Pathway Commons Protein-Protein Interactions	1.0	null
GSE139016_0_v_1_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCFC1	Pathway Commons Protein-Protein Interactions	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2856-03A-01T-0736-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
PMC11618734-ac4c05127_si_004.xlsx-OPTI-PISA_automated_MTX_900ng-Unnamed_2_ZNF568	Rummagene Transcription Factor Associations 2026	1.0	null
GSE154074_1_v_0_bleomycin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
INSIG2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.08752
KIF4A	Pathway Commons Protein-Protein Interactions	1.0	null
MAX_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-TKQ2-0004-SM-3NMAC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.93011
AKT1_knockout_212_GSE39699	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.12931
GSE182854_2_v_0_sirt1_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2AphosphoS5_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_THAP11_20581084	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
5494_NCBP2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.733621
FE-56-PV35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-5.12108
FEV	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5264
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A6H3-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FF-90-JK74_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.584542
GSE142210_9_v_10_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H2AFZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SA-32-CC58_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216657
TAF1_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EOMES	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.6822
NCI-H716	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
H3K27ac_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EK-A2RB-01A-11R-A18M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
heart	GTEx Tissue Gene Expression Profiles	-1.0	-0.866008
H3K9ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
posterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.77053
Retromer complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.377
MTMR2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06061
RAB2A	Pathway Commons Protein-Protein Interactions	1.0	null
STAT1	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_astrocyte of the spinal cord_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EE-98-PF86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.238626
H3K4me3_epithelial cell of esophagus_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
EZH2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EPS8	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-XBED-2626-SM-4E3J5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.853501
VAPA	Pathway Commons Protein-Protein Interactions	1.0	null
SEPT14	Pathway Commons Protein-Protein Interactions	1.0	null
GSE143955_1_v_0_ripk1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
A549_SNS-314 Mesylate_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0132292
ELK1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SCAMP1	Pathway Commons Protein-Protein Interactions	1.0	null
embryonic structure	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.500007
GSE147662_3_v_5_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
2291_DNAJC17_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.780479
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-A6D8-01A-31R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
697	CCLE Cell Line Gene Expression Profiles	-1.0	-1.78435
RHOT2	Pathway Commons Protein-Protein Interactions	1.0	null
2129_DDX54_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.502169
PMC4474670__F3	PFOCR Pathway Figure Associations 2024	1.0	null
GTEX-S95S-0426-SM-4B64I	GTEx Tissue Sample Gene Expression Profiles	1.0	1.04467
GTEX-UTHO-0011-R11A-SM-3GIJE	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.65863
ERGIC3	Pathway Commons Protein-Protein Interactions	1.0	null
STX18	Pathway Commons Protein-Protein Interactions	1.0	null
EBF1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hindbrain	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
PMC7397849-supp_gad.338681.120_Supplemental_Table_S3.xlsx-S3M_Peaks_YAP1MAMLD1_TEAD4-Unnamed_11_TEAD4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-S4Z8-1826-SM-3K2BH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.975463
H3K4me3_CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CCT7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.52557
CPNE3	Pathway Commons Protein-Protein Interactions	1.0	null
PMC8370976-41467_2021_24932_MOESM6_ESM.xlsx-Annotation-Supplementary_Data_4_GO_and_metascape_analysis_of_the_genes_downregulated_in_U87_cells_upon_ZNF768_knockdown_ZNF768	Rummagene Transcription Factor Associations 2026	1.0	null
FLI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.2366
RFX5	ENCODE Transcription Factor Targets	1.0	null
GSE242083,GSE242098_2_v_1_med1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-QLQW-1326-SM-2S1QS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.41075
GTEX-RWS6-0826-SM-47JXF	GTEx Tissue Sample Gene Expression Profiles	1.0	1.20028
H3K4me3_NB4_hg19_1	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
IB-33-TE51_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.44123
A549_PHA-680632_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0109745
GSE115542_2_v_1_digoxin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCFC1	ChEA Transcription Factor Targets	1.0	null
CTCF_GM12868_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATP6V1D	Pathway Commons Protein-Protein Interactions	1.0	null
MAX_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endosomal part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
POLR2A_K562_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SP1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NANOG-16518401-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
VASP	Pathway Commons Protein-Protein Interactions	1.0	null
superior rostral gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.898142
CTCF_HepG2_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
multivesicular body organization	GO Biological Process Annotations 2023	1.0	null
GTEX-T2IS-2926-SM-32QPO	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.871292
PMC11522423-41598_2024_76982_MOESM1_ESM.pdf-41-ENSG00000138380_CARF	Rummagene Transcription Factor Associations 2026	1.0	null
Diabetes Mellitus, Type 2	HuGE Navigator Gene-Phenotype Associations	1.0	null
ZFP42	ChEA Transcription Factor Targets	1.0	null
nuclear part	GO Cellular Component Annotations 2015	1.0	null
GSE48812_9_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K36me3_H7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lysosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.445275
WLS	Pathway Commons Protein-Protein Interactions	1.0	null
cerebellar cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.14442
MHHNB11	CCLE Cell Line Gene Expression Profiles	-1.0	-3.08203
ATF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NEK6	Pathway Commons Protein-Protein Interactions	1.0	null
STAT3_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral nucleus of pulvinar	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09911
ILKAP	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_fibroblast of skin of abdomen_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
amygdaloid complex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.994618
DYNC1LI2	Pathway Commons Protein-Protein Interactions	1.0	null
MYOF	Pathway Commons Protein-Protein Interactions	1.0	null
i-AAA complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.352
GSE199899_4_v_2_diethylnitrosamine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MAX_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EXOC7	Pathway Commons Protein-Protein Interactions	1.0	null
SP in rostral midinferior temporal cortex (area 36)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.00793
PTK2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.52157
GSE246053_4_v_3_hnf4a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
YD-49-HM53_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-6.76474
KDM5B-21448134-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
RAN	Pathway Commons Protein-Protein Interactions	1.0	null
TAF7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PCLAF	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.75791
HOXC9	ChEA Transcription Factor Targets	1.0	null
TEAD4	ChEA Transcription Factor Targets	1.0	null
abnormal cell morphology	MGI Mouse Phenotype Associations 2023	1.0	null
lateral hypothalamic area, tuberal region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.87292
FOXB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.776
GSE148252_7_v_4_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE261563_3_v_1_atrx_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CCDC50	Pathway Commons Protein-Protein Interactions	1.0	null
MGA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5011
EIF2B3	Pathway Commons Protein-Protein Interactions	1.0	null
integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.314046
SIRT4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30638
GTEX-VUSG-2626-SM-4KKZI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.54777
Radial spoke	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.583
esophagus_5a	HPA Tissue Sample Gene Expression Profiles	1.0	1.16635
RMGI	CCLE Cell Line Gene CNV Profiles	1.0	1.78343
GSE195582_0_v_1_pim1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
COLO 853	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.886232
H3K4me3_CD8 Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
POLR2A_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATP6V1C2	Pathway Commons Protein-Protein Interactions	1.0	null
brain	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K27ac_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-T2IS-0826-SM-4DM6L	GTEx Tissue Sample Gene Expression Profiles	1.0	1.47228
Sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.037
emboliform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.87543
Kidney renal papillary cell carcinoma_KIRP_TCGA-GL-A59T-01A-21R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SYNE2	Pathway Commons Protein-Protein Interactions	1.0	null
RASL11A	Pathway Commons Protein-Protein Interactions	1.0	null
IC-05-AW29_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.228747
2658_EP400_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.560648
Membrane Trafficking	Reactome Pathways 2024	1.0	null
H3K27ac_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ChIP_ASH2L_23239880	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.644
Katanin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.821
Head and Neck squamous cell carcinoma_HNSC_TCGA-UF-A7JF-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SJXC-0005-SM-2XCE7	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.64088
7785_SEPTIN2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.518621
intracellular organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
H3K36me3_cardiac mesoderm_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-TSE9-0011-R9A-SM-3DB7Q	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.95411
GTEX-P4PQ-0626-SM-3NMCU	GTEx Tissue Sample Gene Expression Profiles	1.0	0.895935
MCF7_Aurora A Inhibitor I_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0132276
Skin - Sun Exposed (Lower leg)	GTEx Tissue Gene Expression Profiles 2023	1.0	2.88975
CTCF_MEL cell line_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-P4QS-0626-SM-3NMD1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03921
biofilm	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.548517
hsa-miR-4725-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.274552
CTCF_epithelial cell of proximal tubule_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_7_v_11_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-RU72-0011-R2A-SM-2TF6O	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06514
hsa-miR-1275	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
GTEX-T8EM-1226-SM-4DM5J	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02311
SNRPA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.10208
Cell division site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.06
Prostate adenocarcinoma_PRAD_TCGA-M7-A724-01A-12R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOS_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mobilized_CD34_Primary_Cells_Female	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-0.826096
CTCF_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XOTO-0011-R9A-SM-4GICI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.03472
GSE215351,GSE215794_4_v_3_kdm8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cytosol	GO Cellular Component Annotations 2015	1.0	null
HOXA10	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.2697
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.03
embryonic lethality prior to tooth bud stage	MGI Mouse Phenotype Associations 2023	1.0	null
COPI-coated vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.982
STAT3	Pathway Commons Protein-Protein Interactions	1.0	null
HCC3153	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.829727
TFRC	Pathway Commons Protein-Protein Interactions	1.0	null
midbrain reticular formation, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.6012
Retrotransposon nucleocapsid	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.127
GSE250534_0_v_3_cabergoline_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-U4B1-1026-SM-4DXT1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.35281
inferolateral temporal cortex (area TEv, area 20)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.10341
GTEX-TKQ1-0008-SM-4DXSO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.856456
establishment of protein localization to vacuole	GO Biological Process Annotations 2015	1.0	null
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.125
EXOC1	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_GM12864_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain_Hippocampus_Middle	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.05407
dorsal lateral geniculate nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.08188
LMO7	Pathway Commons Protein-Protein Interactions	1.0	null
TBC1D10B	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_Caco-2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Stomach Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
NCOR1-26117541-K562-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
AB-18-YN11_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.331851
PRKAA1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE216274,GSE216292_4_v_1_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
single-organism transport	GO Biological Process Annotations 2015	1.0	null
XRCC5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14075
inner SZ in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.70522
CDC42BPB	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-XOTO-0011-R6B-SM-4B65X	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.17687
regulation of nucleobase-containing compound metabolic process	GO Biological Process Annotations 2015	1.0	null
769P	CCLE Cell Line Gene Expression Profiles	1.0	1.53561
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A8HY-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_keratinocyte_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
negative regulation of protein tyrosine kinase activity	GO Biological Process Annotations 2025	1.0	null
GTEX-O5YT-1626-SM-32PK6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.61017
POLR2A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-3153	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
bounding membrane of organelle	GO Cellular Component Annotations 2023	1.0	null
layer III of rostral entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.985018
WM983B	CCLE Cell Line Gene Expression Profiles	-1.0	-1.61624
GSE184399_0_v_2_cnot1_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC6293073-LSA-2018-00153_TableS3.xlsx-B_KD_Tr_2_genes-155_genes_upregulated_upon_knockdown_of_Tr_2_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_H7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
JIMT1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.36589
PMC4212256-mmc5.xlsx-FLI1_log2_results-MIR622_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
M059K	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.958384
PWWP2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34728
animal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
VPS4A	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endosomal part	GO Cellular Component Annotations 2015	1.0	null
skeletalmuscle_b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.75485
organelle part	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
H3K4me3_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1534	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.953825
membrane	GO Cellular Component Annotations 2015	1.0	null
PFEIFFER	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.04655
cell	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
SK-OV-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.04655
EPS8L2	Pathway Commons Protein-Protein Interactions	1.0	null
digestive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
ATM	Pathway Commons Protein-Protein Interactions	1.0	null
PMC4519954__F13	PFOCR Pathway Figure Associations 2023	1.0	null
golgi apparatus	LOCATE Predicted Protein Localization Annotations	1.0	null
Accessory sex gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.862
Perturb_5914_KD_HMGA1_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.18397
LNCAP-CLONE-FGC	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A76B-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ESR1-26153859-T47D-HUMAN-BREAST-CARCINOMA	ChEA Transcription Factor Targets 2022	1.0	null
DC-47-KV62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200145
RRAS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08739
PRKAG1	Pathway Commons Protein-Protein Interactions	1.0	null
NF1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE63857_3_v_1_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
DUXA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2489
inferolateral temporal cortex (area TEv, area 20)_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.833747
BNC2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.838
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.52253
BCAP31	Pathway Commons Protein-Protein Interactions	1.0	null
RAB5B	Pathway Commons Protein-Protein Interactions	1.0	null
GSE227698_2_v_1_g0s2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE103068_0_v_1_volasertib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KAT2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RUNX3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PACSIN2	Pathway Commons Protein-Protein Interactions	1.0	null
biological_process	GO Biological Process Annotations 2015	1.0	null
JAK1	Pathway Commons Protein-Protein Interactions	1.0	null
BL2727 (SCAND1)	NURSA Protein Complexes	1.0	null
REST_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OSBPL8	Pathway Commons Protein-Protein Interactions	1.0	null
PHF8	ENCODE Transcription Factor Targets	1.0	null
NCI-H596	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.80063
Multivesicular body	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.689
TSPAN2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08386
endosome	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
NF-21-HQ00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.534772
ACSF2	Pathway Commons Protein-Protein Interactions	1.0	null
SDF4	Pathway Commons Protein-Protein Interactions	1.0	null
ROBO3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.49227
CTCF_keratinocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-RN64-1026-SM-48FDX	GTEx Tissue Sample Gene Expression Profiles	1.0	1.84893
epithelioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.051943
hsa-miR-4665-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
GSE140997_4_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE129389_0_v_5_tropifexor_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_fibroblast of pulmonary artery_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STX5	Pathway Commons Protein-Protein Interactions	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ED-A7PZ-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VZ in subcallosal region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.849303
FOXM1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nfatc2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.9416
CTCF_fibroblast of lung_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE226439,GSE226441_6_v_2_hnf4g_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PARD6A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02786
GTEX-T6MN-0011-R4A-SM-32QPG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.09021
ZC3H11A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RUNX3	ENCODE Transcription Factor Targets	1.0	null
CHAGOK1_LUNG	CCLE Cell Line Proteomics	1.0	2.69485
ventral lateral nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09422
SP1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KIF11	Pathway Commons Protein-Protein Interactions	1.0	null
dorsolateral prefrontal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.22003
BLOC1S2	Pathway Commons Protein-Protein Interactions	1.0	null
AF-72-PP21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.534813
GSE232624_4_v_5_ethanol_human	RummaGEO Drug Perturbation Signatures	1.0	null
FOXA2_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UACC812	CCLE Cell Line Gene Expression Profiles	-1.0	-1.91441
TAF7_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RSU1	Pathway Commons Protein-Protein Interactions	1.0	null
DAOY	CCLE Cell Line Gene Expression Profiles	-1.0	-1.66284
head	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
organic cyclic compound metabolic process	GO Biological Process Annotations 2015	1.0	null
ZR7530	CCLE Cell Line Gene CNV Profiles	-1.0	-1.64405
SAP30_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CALU-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46561
YY1_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PWN1-0626-SM-48TDT	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00906
organic cyclic compound biosynthetic process	GO Biological Process Annotations 2015	1.0	null
pineal gland	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.20066
macromolecular complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.368153
protein homodimerization activity	GO Molecular Function Annotations 2015	1.0	null
membrane organization	GO Biological Process Annotations 2025	1.0	null
LGR5	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_GM10847_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBX5-21415370-HL-1-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
TRAPPC6B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.21946
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9532
GTEX-XUZC-0426-SM-4BOPE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.33598
PTP4A1	Pathway Commons Protein-Protein Interactions	1.0	null
KIAA0753	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03644
Golgi-associated vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.157
SNAI2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.8521
TBP_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RB1_KD_GSE50532_623_human_OSTEOBLASTS	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
POLR2A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Leukemia_chronicMyelogenousK-562	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.55623
H3K4me3_endothelial cell of umbilical vein_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-PSDG-0426-SM-2S1OF	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.47899
DC-93-NP78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.576643
IRF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE159937_1_v_0_tfcp2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TXLNG	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12864_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SNOS-0008-SM-4DM6I	GTEx Tissue Sample Gene Expression Profiles	1.0	1.54879
AA-67-TF79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211103
AC-28-RT00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204223
Nerve cord	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.196
ERF::NHLH1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	54.9587
FOXF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.0808
496100640_PCx_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.11724
HCC461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.884923
MAX_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFG8-1626-SM-4LVMB	GTEx Tissue Sample Gene Expression Profiles	1.0	1.10008
JA-85-SW39_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.939133
Phagophore assembly site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.853
Organelle lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.568
ventricular (matrix) zone of pons	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.65796
layer V of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.71977
Endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.708
extracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GTEX-XMK1-1326-SM-4B65Q	GTEx Tissue Sample Gene Expression Profiles	1.0	1.51137
PANC 03.27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
GTEX-Q734-0426-SM-48TZX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.00161
GTEX-WWYW-0526-SM-3NB2W	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.32281
DOPEY2	Pathway Commons Protein-Protein Interactions	1.0	null
SRF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lateral habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.1313
H3K4me1_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
HNF4A	ChEA Transcription Factor Targets	1.0	null
H3K4me3_astrocyte of the spinal cord_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ventrolateral prefrontal cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.18005
H3K27ac_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCMV Late Events	Reactome Pathways 2024	1.0	null
H3K9ac_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
DA-58-LZ09_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.681333
USP9X	Pathway Commons Protein-Protein Interactions	1.0	null
H3K79me1_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CTCF_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.34459
HEYA8	CCLE Cell Line Gene Expression Profiles	1.0	1.42653
GSE119564_2_v_0_zfp217_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Early endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.15
GTEX-QVJO-0006-SM-2S1RC	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.03993
Uterine Carcinosarcoma_UCS_TCGA-ND-A4WA-01A-12R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-PQ-A6FI-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE233679_6_v_4_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE169152_3_v_2_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE80446_0_v_1_anakinra_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_CD4+ CD25- CD45RO+ Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
protein-containing complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
H3K27ac_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.02
CTCF_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PIN1	Pathway Commons Protein-Protein Interactions	1.0	null
ERBB3	Pathway Commons Protein-Protein Interactions	1.0	null
mononuclear phagocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.075282
H3K9ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
496100628_FWM_dementia_TBI_77_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.264
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.071
CHP1	Pathway Commons Protein-Protein Interactions	1.0	null
anteroventral nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.52012
Lung adenocarcinoma_LUAD_TCGA-55-1594-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GA-88-CF36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.299078
nuclear part	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GSE234289_4_v_0_rfx6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-Q2AH-0826-SM-48TZN	GTEx Tissue Sample Gene Expression Profiles	1.0	1.30668
HCC1187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.41432
occipital pole, left, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.29567
GTEX-U3ZH-0002-SM-3NMDD	GTEx Tissue Sample Gene Expression Profiles	1.0	1.96269
RIMS1	Pathway Commons Protein-Protein Interactions	1.0	null
CDK1	Pathway Commons Protein-Protein Interactions	1.0	null
FB-39-CW59_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.719462
NCIH2066	CCLE Cell Line Gene Expression Profiles	1.0	1.89558
DIDO1	Pathway Commons Protein-Protein Interactions	1.0	null
HSF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.35587
GTEX-RVPU-0011-R9A-SM-3NM8E	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.6825
GTF2B	ENCODE Transcription Factor Targets	1.0	null
CDC23	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.33626
GTEX-XUJ4-1226-SM-4BOPD	GTEx Tissue Sample Gene Expression Profiles	1.0	1.14412
SNU-398	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
H3K9ac_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TAP2	Pathway Commons Protein-Protein Interactions	1.0	null
9747_VPS28_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.515571
RAB21	Pathway Commons Protein-Protein Interactions	1.0	null
GB-57-XV52_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.335985
Lung adenocarcinoma_LUAD_TCGA-86-7955-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
968_C12ORF60_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.599449
POU2F2_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIN3A_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.883917
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.62584
HTT	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	GO Biological Process Annotations 2015	1.0	null
FOXF2	JASPAR Predicted Transcription Factor Targets	1.0	null
BD-49-MD69_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.95576
GTEX-N7MS-0926-SM-2HMIZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.54209
ATP6V1B2	Pathway Commons Protein-Protein Interactions	1.0	null
PMC10836071-media-2.xlsx-Supplementary_Table_5-ELK4_all_ELK4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-P4QT-1826-SM-2S1NJ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.900049
Golgi stack	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.889
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
SH3BP1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE179531_1_v_0_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.26712
Lung adenocarcinoma_LUAD_TCGA-95-7043-01A-11R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-WH7G-0002-SM-4LVN9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.98923
OCILY19	CCLE Cell Line Gene Expression Profiles	-1.0	-1.58286
VPS51	Pathway Commons Protein-Protein Interactions	1.0	null
MOSPD2	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRAPPC4	Pathway Commons Protein-Protein Interactions	1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
MDA-MB-453	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03676
mediodorsal nucleus of thalamus_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00448
CTCF_GM12864_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-N7MT-0011-R4a-SM-2I3G9	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.12951
GTEX-RU72-0726-SM-46MUW	GTEx Tissue Sample Gene Expression Profiles	1.0	2.04878
all	GWASdb SNP-Phenotype Associations	1.0	0.028157
lethality throughout fetal growth and development, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
outer plexiform zone in extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.850117
8426_SRRT_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.806015
HAUS1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE239578_0_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AD-06-OB47_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.227948
A549_Ramelteon_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0149346
GSE135514_2_v_5_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RHOF	Pathway Commons Protein-Protein Interactions	1.0	null
NFIC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SAOS2_BONE	CCLE Cell Line Proteomics	1.0	16.5169
Dlx2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	17.9907
CTCF_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-OOBJ-1526-SM-3NB1Q	GTEx Tissue Sample Gene Expression Profiles	1.0	0.903749
H3K4me1_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
EZH2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_foreskin fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PU.1-20176806-MACROPHAGES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
1943_CTR9_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.51656
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.25055
GSE203362_0_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_BE2C_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
STK39	Pathway Commons Protein-Protein Interactions	1.0	null
Glioblastoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.043
CTCF_CH12.LX_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_CD4+ CD25- Th Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
VPS29	Pathway Commons Protein-Protein Interactions	1.0	null
ZNF384_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VMRC-LCD	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.37513
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.43742
ANXA5	Pathway Commons Protein-Protein Interactions	1.0	null
GSE148321,GSE169423_2_v_1_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AGK	Pathway Commons Protein-Protein Interactions	1.0	null
ventrolateral prefrontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.31336
Lung squamous cell carcinoma_LUSC_TCGA-51-4080-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-XOTO-2926-SM-4B65G	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.829538
MYBL2	ChEA Transcription Factor Targets	1.0	null
HCFC1	ENCODE Transcription Factor Targets	1.0	null
Nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.223
E2F6_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE214823,GSE214824_0_v_2_crtc2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
regulation of rna metabolic process	GO Biological Process Annotations 2015	1.0	null
GTEX-PLZ6-0008-SM-48TD5	GTEx Tissue Sample Gene Expression Profiles	1.0	1.10247
POLR2AphosphoS5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CF-87-AS90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.95135
MYC_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
bronchus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.766125
hsa-miR-4789-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
CTCF_BJ_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMYD5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.35008
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MYBL2_MYBL2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE109140_0_v_3_valproic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MYC-19915707-AK7-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
CTCF_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-OXRP-0006-SM-2I3FN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.71711
HEC-1-A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.877385
AGAP9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21663
POLR2A_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE48812_2_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-3005-03A-01T-0736-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
IZ in posteroinferior (ventral) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.35937
Parkinson's Disease_Substantia Nigra_GSE7621	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.55492
EP300	ENCODE Transcription Factor Targets	1.0	null
establishment of protein localization to organelle	GO Biological Process Annotations 2015	1.0	null
SCARB2	Pathway Commons Protein-Protein Interactions	1.0	null
TAF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ARF6	Pathway Commons Protein-Protein Interactions	1.0	null
SN12C	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.97767
organic substance transport	GO Biological Process Annotations 2015	1.0	null
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14319
Procyclic form	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.102
Septin cytoskeleton	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.651
membrane organization	GO Biological Process Annotations 2015	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2985-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE82110,GSE82299_1_v_0_acriflavine_human	RummaGEO Drug Perturbation Signatures	1.0	null
KHDRBS1	Pathway Commons Protein-Protein Interactions	1.0	null
721_B_lymphoblasts	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	2.2169
behavioral abnormality	GWASdb SNP-Phenotype Associations	1.0	0.089152
SGK3	Pathway Commons Protein-Protein Interactions	1.0	null
Stat5a::Stat5b	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	24.2544
anterior (rostral) cingulate (medial prefrontal) cortex_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.10804
depression	GWASdb SNP-Phenotype Associations	1.0	0.471832
5089_NIFK_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.586155
primary somatosensory cortex (area S1, areas 3,1,2)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.942744
MAZ_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE124375_10_v_9_chd2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
macroautophagy	GO Biological Process Annotations 2025	1.0	null
TC-71	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.22551
Sarcoma_SARC_TCGA-DX-A8BK-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
SuperiorCervicalGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.27982
S0-EE-WJKI_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.05551
Larval brain	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.31
ventrolateral prefrontal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.86107
MXI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
1718_CNOT3_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.505277
PMC6138639-41467_2018_6247_MOESM4_ESM.xlsx-S1_1_ZZZ3_ChIP-seq_peaks-Genebody_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
pontine reticular formation, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.09749
GTEX-N7MT-0326-SM-48TDP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01927
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884804
GTEX-Q2AG-0008-SM-48U2K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.92846
nucleic acid-templated transcription	GO Biological Process Annotations 2015	1.0	null
DF-00-BU08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.397162
AB-85-JR73_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.254654
POLR2A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_431_KD_MYBL2_SRP371675	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.3814
H3K4me3_brain microvascular endothelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
late endosome to vacuole transport via multivesicular body sorting pathway	GO Biological Process Annotations 2023	1.0	null
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.87625
PPP2CA	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
EGR1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC6877688__F4	PFOCR Pathway Figure Associations 2023	1.0	null
Endometrial luminal epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.516
GSE158834_12_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC8709578-elife-69843-supp4.xlsx-HSF1_ChIP-seq_peaks-Gene_Name_HSF1	Rummagene Transcription Factor Associations 2026	1.0	null
A2058	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.89993
JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.2425
GSE231891_5_v_4_cdk8_human	RummaGEO Gene Perturbation Signatures	1.0	null
WE-43-PZ45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.888117
GTEX-T5JW-0008-SM-4DM5X	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17678
E2F1-18555785-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-TSE9-0011-R11A-SM-3DB7N	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.23861
cerebellar cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.917014
IMPA2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14966
FOS	JASPAR Predicted Transcription Factor Targets	1.0	null
GTEX-SNMC-0008-SM-4DM5A	GTEx Tissue Sample Gene Expression Profiles	1.0	1.29257
GSE120756_2_v_9_tet2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RPL23A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.82506
SNAP29	Pathway Commons Protein-Protein Interactions	1.0	null
H3K79me2_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SW 900	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.00369
NCIH1915	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77053
RAB19	Pathway Commons Protein-Protein Interactions	1.0	null
GSE89767_7_v_5_cebpa_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE157594_6_v_7_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-VUSG-0526-SM-4KL22	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.859406
CTCF_epithelial cell of proximal tubule_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PLEKHF2	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BB-62-SZ35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.300834
SKIC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0655
MES-SA	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-4.27583
lateral orbital frontal cortex (area 12/47)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.850568
respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.046538
H3K4me1_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
hsa-miR-646	TargetScan Predicted Conserved microRNA Targets	1.0	0.348832
H3K4me3_keratinocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC7397849-supp_gad.338681.120_Supplemental_Table_S3.xlsx-S3M_Peaks_YAP1MAMLD1_TEAD4-Unnamed_14_TEAD4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-WFG8-1826-SM-4LVM4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.898249
GTEX-QESD-1626-SM-2S1RB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.19614
pontine raphe nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.04965
FAM174C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.3393
Edema	HuGE Navigator Gene-Phenotype Associations	1.0	null
inferolateral temporal cortex (area TEv, area 20)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.865498
TSG101	Pathway Commons Protein-Protein Interactions	1.0	null
escrt ii complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	2.6524
Nuclear lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.568
Adrenocortical carcinoma_ACC_TCGA-OR-A5JM-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CF-50-QK79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.666811
cervical carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.097198
GSE149359_2_v_1_asap2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-X4XX-0011-R3B-SM-46MWK	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.933611
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
protein dimerization activity	GO Molecular Function Annotations 2015	1.0	null
WRNIP1	ENCODE Transcription Factor Targets	1.0	null
Rectum adenocarcinoma_READ_TCGA-DC-6682-01A-11R-1830-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
4957_MED7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.521916
2828_RAMAC_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.00316
SUDHL1	CCLE Cell Line Gene CNV Profiles	1.0	2.53416
GB-46-CK08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.2765
embryonic fibroblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.28107
GTEX-S7SF-2026-SM-3K2AS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.875381
H3K36me3_H7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-64-1676-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.994528
Bladder Urothelial Carcinoma_BLCA_TCGA-YF-AA3L-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_527_KD_RUNX3_SRP201921	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
IQGAP2	Pathway Commons Protein-Protein Interactions	1.0	null
MYF5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.59584
membrane-enclosed lumen	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
SNX8	Pathway Commons Protein-Protein Interactions	1.0	null
bronchial disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.173571
A-427	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
Lung squamous cell carcinoma_LUSC_TCGA-66-2766-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SMC1A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.17627
POLR2AphosphoS5_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCFC1-20581084-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GIPC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.3068
GSE62843,GSE64370_0_v_3_furan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
syndecan-syntenin-ALIX complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.237
VTI1A	Pathway Commons Protein-Protein Interactions	1.0	null
reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052716
SUDHL1	CCLE Cell Line Gene Expression Profiles	1.0	1.72082
GTEX-R3RS-0005-SM-3GAEH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.966914
cellular process	GO Biological Process Annotations 2015	1.0	null
BCL6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.6849
GSE182727_1_v_0_busulfan_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
TAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MCF7_Meprednisone_1µM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0133882
MYC-27129775-CHIP-SEQ-CORNEA-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
skeletalmuscle_d	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.18706
GSE152055_0_v_1_mpc1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC12364684-DataSheet1.pdf-22-JUND_JUND	Rummagene Transcription Factor Associations 2026	1.0	null
Male reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.073
cos cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.19192
SIN3A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
rectum_8d	HPA Tissue Sample Gene Expression Profiles	1.0	1.28742
STAT1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CNPY3	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_Colonic Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
RAB18	Pathway Commons Protein-Protein Interactions	1.0	null
Lassa fever	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.151
MZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.957624
EGR1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAG1	Pathway Commons Protein-Protein Interactions	1.0	null
mononuclear cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.067532
GSE143462_0_v_1_omipalisib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-RU72-0011-R9A-SM-2TF67	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.40427
CREM-20920259-GC1-SPG-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
CTCF_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE142210_2_v_8_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
COS-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.061
ChIP_HCIF1_20581084	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
RBPJ	ChEA Transcription Factor Targets	1.0	null
H3K9ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AC-28-RT00_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.206787
Mon1-Ccz1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.586
RRAS2	Pathway Commons Protein-Protein Interactions	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-5524-01A-01R-1580-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
H3K4me3_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_HeLa-S3_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
MAX_NB4_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242290_1_v_0_glutathione_human	RummaGEO Drug Perturbation Signatures	1.0	null
ELK4_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SCH	COSMIC Cell Line Gene CNV Profiles	1.0	3.12177
GSE135030_3_v_0_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ETS1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-NPJ7-0011-R2a-SM-2I3GF	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.866869
Daltons lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.589
ELF1	ENCODE Transcription Factor Targets	1.0	null
GTEX-R3RS-1326-SM-48FE7	GTEx Tissue Sample Gene Expression Profiles	1.0	2.36445
imaginal disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.2452
TFE3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.4353
GSE215155_0_v_1_golph3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in septal region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.79611
FOSL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hmx2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	32.8977
TBP_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SKN-3	COSMIC Cell Line Gene Mutation Profiles	1.0	null
MON2	Pathway Commons Protein-Protein Interactions	1.0	null
cerebellar cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.90528
CTCF_GM06990_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_Peripheral Blood Mononuclear Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CEBPD	ENCODE 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 Microarray	-1.0	-1.65895
ELK1-19687146-Hela cells-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
Disease of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.033
escrt complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.51342
GSE104508_0_v_3_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FF-86-NH56_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.741678
organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.431041
GSE233049_1_v_3_atf3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-5977-01A-11R-1686-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-4293	TargetScan Predicted Conserved microRNA Targets	1.0	0.226173
EGR1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-O5YV-0006-SM-2I5GX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.03043
primary visual cortex (striate cortex, area V1/17)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.04089
Mafg	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	29.5736
STAT5A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-LB-A8F3-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BECKER	CCLE Cell Line Gene CNV Profiles	-1.0	-3.15672
NFIC_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-B9-A5W9-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HUPT3	CCLE Cell Line Gene CNV Profiles	1.0	1.6038
embryonic lethality prior to organogenesis	IMPC Knockout Mouse Phenotypes	1.0	null
H3K79me2_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Logopenic progressive aphasia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.132
membrane-bounded organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
NELFE	ENCODE Transcription Factor Targets	1.0	null
intracellular protein transport	GO Biological Process Annotations 2015	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2959-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
5879_NUFIP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.518938
H3K4me3_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
EVSA-T	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.34892
GSE188570,GSE188571_5_v_0_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_epithelial cell of esophagus_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tardbp_19910924_hek293e_lof_human_gpl570_gds3730	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.100862
GSE102132_2_v_1_irf3_human	RummaGEO Gene Perturbation Signatures	1.0	null
MAP2K4	Pathway Commons Protein-Protein Interactions	1.0	null
CLASRP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.53538
Peripheral_Blood_Mononuclear_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-0.925031
ventrolateral prefrontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.60536
Head and Neck squamous cell carcinoma_HNSC_TCGA-HD-A6I0-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
WRNIP1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A39X-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A549_Tranylcypromine_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0147646
GSE142210_11_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BCL3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.093
STOML2	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_mammary epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-X4XX-0011-R4B-SM-46MWL	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.3907
2490_EEF2_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.533299
POLR2AphosphoS5_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KIF5B	Pathway Commons Protein-Protein Interactions	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-NC-A5HG-01A-11R-A26W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
medial geniculate nuclei	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.03513
inferolateral temporal cortex (area TEv, area 20)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.96932
H3K4me3_cardiac fibroblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
USO1	Pathway Commons Protein-Protein Interactions	1.0	null
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.439
ETV4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.9192
GSE89154_1_v_3_proscillaridin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC11522423-41598_2024_76982_MOESM1_ESM.pdf-41-CARF_CARF	Rummagene Transcription Factor Associations 2026	1.0	null
VPS26A	Pathway Commons Protein-Protein Interactions	1.0	null
PML_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE138789_0_v_1_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SPI1_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ACHN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.12905
H3K4me1_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE188382_4_v_0_sirt5_human	RummaGEO Gene Perturbation Signatures	1.0	null
MECOM-23826213-KASUMI-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	GO Biological Process Annotations 2023	1.0	null
polydactyly	MGI Mouse Phenotype Associations 2023	1.0	null
GSE217115_2_v_4_alectinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
NCIH522	CCLE Cell Line Gene CNV Profiles	1.0	1.76455
PU.1-20513432-BCELLS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
AC-84-QG99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.214957
FOSL2::JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.6072
ZWINT	Pathway Commons Protein-Protein Interactions	1.0	null
GSE164757,GSE164759_1_v_3_trametinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-TKQ2-0826-SM-33HB6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.908868
MXI1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAB3GAP2	Pathway Commons Protein-Protein Interactions	1.0	null
TBP_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMF1	Pathway Commons Protein-Protein Interactions	1.0	null
embryonic lethality prior to tooth bud stage	IMPC Knockout Mouse Phenotypes	1.0	null
DE-58-OW37_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.26735
ONECUT3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	63.5932
GTEX-T6MN-0002-SM-3NMAH	GTEx Tissue Sample Gene Expression Profiles	1.0	1.07596
GTEX-X4XX-0011-R11A-SM-46MWQ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.38897
TOV21G	CCLE Cell Line Gene Expression Profiles	1.0	1.79594
GTEX-X62O-2226-SM-46MW3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.63839
GSE210655_3_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
REPS1	Pathway Commons Protein-Protein Interactions	1.0	null
Necrosis	CTD Gene-Disease Associations	1.0	1.43946
biosynthetic process	GO Biological Process Annotations 2015	1.0	null
intracellular protein transport	GO Biological Process Annotations 2023	1.0	null
Sperm flagellum	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.088
Head and Neck squamous cell carcinoma_HNSC_TCGA-BB-8601-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.481259
Ebola hemorrhagic fever	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.293
Lung adenocarcinoma_LUAD_TCGA-44-7670-01A-11R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE142210_3_v_8_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K56ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Prospore contractile ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.636
primary auditory cortex (core)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.3432
H3K4me3_Adult Liver	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
macromolecule biosynthetic process	GO Biological Process Annotations 2015	1.0	null
STAT5A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-X4XY-0011-R8A-SM-46MVC	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.75424
Nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
FOXL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.2746
GTEX-XBEC-1326-SM-4AT69	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.33914
GTEX-XPVG-1826-SM-4B64X	GTEx Tissue Sample Gene Expression Profiles	1.0	0.845053
CTCF_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SYK_druginhibition_290_GSE43510	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-3.4637
snoutepidermis	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.11462
IRF1	ENCODE Transcription Factor Targets	1.0	null
GSE200388_0_v_1_gemin5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Optic ganglion	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.625
GTEX-POMQ-0008-SM-48TE7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.18893
WDFY1	Pathway Commons Protein-Protein Interactions	1.0	null
PMC9341507-supp_gr.266924.120_Supplemental_Table_S4.xlsx-A_Jurkat_essential-MYB_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
tissues, cell types and enzyme sources	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
MAFK_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF143_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AB-33-EM56_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.374569
Phycobiont	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.059
PMC6987220-41467_2020_14312_MOESM5_ESM.xlsx-P53_Spheres-10_names_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
protein targeting to vacuole	GO Biological Process Annotations 2015	1.0	null
GF-35-IT27_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.79322
CSNK1D	Pathway Commons Protein-Protein Interactions	1.0	null
IQGAP3	Pathway Commons Protein-Protein Interactions	1.0	null
GSE223893_1_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12354803-42003_2025_8643_MOESM2_ESM.xlsx-2w_TP63_positive-Gene_TP63	Rummagene Transcription Factor Associations 2026	1.0	null
skin	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
LYSP100-associated nuclear domain	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.535
SPTBN1	Pathway Commons Protein-Protein Interactions	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4132-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOXO3-22982991-MACROPHAGES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE243199_1_v_0_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
primary visual cortex (striate cortex, area V1/17)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.884865
GSE135352_6_v_4_napabucasin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H2AFZ_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
16909116-Table2	GeneSigDB Published Gene Signatures	1.0	null
H3K4me1_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-U3ZN-1726-SM-4DXUQ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03113
GSE87412,GSE92423_0_v_4_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
eGFP-JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPP2R1B	Pathway Commons Protein-Protein Interactions	1.0	null
HGS	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-OIZG-0726-SM-33HBL	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01433
protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	GO Biological Process Annotations 2025	1.0	null
CTCF_BE2C_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYBL2-22936984-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_fibroblast of mammary gland_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
redundant	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
STAM	Pathway Commons Protein-Protein Interactions	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-KU-A6H7-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hippocampus (hippocampal formation)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.00969
9972_ZBTB16_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.573398
SOX13	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.1503
GTEX-TMMY-1126-SM-4DXSX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.980653
ATP6V0C	Pathway Commons Protein-Protein Interactions	1.0	null
LCLC-97TM1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4052
CTCF_GM10248_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CLASP2	Pathway Commons Protein-Protein Interactions	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ES-A2HS-01A-11R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_GM12867_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CUX1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE213632_3_v_6_acod1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MTF2-20144788-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.0435
RAB43	Pathway Commons Protein-Protein Interactions	1.0	null
JUN_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_astrocyte of the spinal cord_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-X88G-0004-SM-47JZ6	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0104
nucleobase-containing compound biosynthetic process	GO Biological Process Annotations 2015	1.0	null
SAP30	ENCODE Transcription Factor Targets	1.0	null
MYC	ChEA Transcription Factor Targets	1.0	null
GSE86507,GSE86509_0_v_8_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-XOTO-0006-SM-4B64T	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.96317
CTCF_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
ARFGEF1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE185944_0_v_3_pth1r_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Crus I, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.73532
short limbs	MGI Mouse Phenotype Associations 2023	1.0	null
GTEX-WVLH-0011-R8A-SM-3MJFC	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.947512
H3K4me3_Adipose Derived Mesenchymal Stem Cell Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CREB1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
spleen	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.88543
Cortical endoplasmic reticulum	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.792
H3K9ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TA-34-CK62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.690112
H3K9ac_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FIG4	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-X4XX-0005-SM-3NMCS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.323
membrane-bounded vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE216273,GSE216292_14_v_3_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
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
epidermis	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE200430_1_v_0_sema3d_human	RummaGEO Gene Perturbation Signatures	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	-0.910856
H2AFZ_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NINJ1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.17278
ZXDA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34383
FOS_MCF 10A_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
transport	GO Biological Process Annotations 2015	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.05349
protein localization	GO Biological Process Annotations 2015	1.0	null
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-PSDG-0008-SM-48TE5	GTEx Tissue Sample Gene Expression Profiles	1.0	0.832117
ATG3	Pathway Commons Protein-Protein Interactions	1.0	null
GD-82-CS38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.334692
YAP1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
GSE201309_5_v_7_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
lytic vacuole	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.445275
FLII	Pathway Commons Protein-Protein Interactions	1.0	null
EP300_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
esophagus	HPA Tissue Gene Expression Profiles	1.0	0.943866
GSE206516,GSE206518_5_v_7_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
CC-04-WK34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.796553
TCF12_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9328_TRRAP_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.608295
hepg2	HPA Cell Line Gene Expression Profiles	1.0	0.944605
transcription, dna-templated	GO Biological Process Annotations 2015	1.0	null
GTEX-O5YT-1426-SM-3MJHC	GTEx Tissue Sample Gene Expression Profiles	1.0	1.24478
H3K4me3_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
WDR12	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-SUCS-1626-SM-32PLS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.07142
Y-shaped link	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.315
7403_RNMT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.69313
ANXA9	Pathway Commons Protein-Protein Interactions	1.0	null
Novikoff hepatoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.512
SNX1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE201239_0_v_7_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_fibroblast of the aortic adventitia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIN3A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SJXC-0526-SM-2XCFG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.857199
hsa-miR-4456	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
H3K4me3_WERI-Rb-1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-XQ-A8TA-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_CD4+ CD25int CD127+ Tmem Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE214335_1_v_0_sox9_human	RummaGEO Gene Perturbation Signatures	1.0	null
regulation of gene expression	GO Biological Process Annotations 2015	1.0	null
RARG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.7969
MXI1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATF2_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PSDG-1326-SM-48TD2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21316
intracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE224969,GSE224971_0_v_1_chtop_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Sarcoma_SARC_TCGA-DX-A8BS-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Nucleolus	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.568
striatum_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.03873
CHD2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-T5JW-0003-SM-3NMAD	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17335
A549_Entacapone_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0143054
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DG-A2KJ-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF143_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ESCRT IV complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.236
GTEX-S3XE-2026-SM-3K2B5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.90989
premotor cortex (area 6)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.08056
NCIH522	CCLE Cell Line Gene Expression Profiles	1.0	1.75649
MDA-MB-468	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.00579
GABPA_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.6524
7459_RPL31_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.537083
CTCF_cardiac fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
midline nuclear complex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.32326
IM-95	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
SFT2D2	Pathway Commons Protein-Protein Interactions	1.0	null
decreased lean body mass	MGI Mouse Phenotype Associations 2023	1.0	null
GTEX-N7MS-0626-SM-2YUN7	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.836747
MAX_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CADM1_KO_GDS2026_301_mouse_testis	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
H3K4me1_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
YY1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AB-92-GP61_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.296991
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	-2.29828
FOSL2_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
single-organism intracellular transport	GO Biological Process Annotations 2015	1.0	null
UF-27-HS98_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.36454
extracellular vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.057922
DC-51-WE27_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.44357
H3K4me3_HL-60_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_mammary epithelial cell_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CUX1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ANXA3	Pathway Commons Protein-Protein Interactions	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20Q-11A-11R-A14Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
intracellular organelle lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
Endoplasmic reticulum tubular network	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.778
PMC8650352-JCB_202012097_DataS1.xlsx-VHL_KD_proteinGroups-Gene_names_AR	Rummagene Transcription Factor Associations 2026	1.0	null
PMC10967149-12903_2024_4167_MOESM3_ESM.xlsx-LPS_VS_LPS_PDLSC-CM_776-Gene_symbol_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
2251_DMAP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.586845
Lung squamous cell carcinoma_LUSC_TCGA-39-5037-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AP1M2	Pathway Commons Protein-Protein Interactions	1.0	null
H4K91ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CACNA1H	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.69446
KIAA0196	Pathway Commons Protein-Protein Interactions	1.0	null
organelle assembly	GO Biological Process Annotations 2023	1.0	null
PAX2	JASPAR Predicted Transcription Factor Targets	1.0	null
GTEX-X4XY-0626-SM-4E3IN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.23734
GSE89729_0_v_1_ppard_human	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.66464
Genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.36
organelle lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GTEX-TML8-1926-SM-32QOS	GTEx Tissue Sample Gene Expression Profiles	1.0	0.882574
layer III of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.12061
TRIM28-19339689-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
AD-18-XC14_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.322288
H3K4me3_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
AP3S1	Pathway Commons Protein-Protein Interactions	1.0	null
TP53BP2	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-R53T-1126-SM-48FD4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.834965
obstructive lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.076132
orbital frontal cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.866093
CDK7_knockdown_124_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.62651
Perturb_14712_KD_TBX3_SRP305624	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.12317
MAX_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
protein targeting	GO Biological Process Annotations 2015	1.0	null
PAX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.6868
GATA1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-39-5019-01A-01R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JUND	ENCODE Transcription Factor Targets	1.0	null
GTEX-V1D1-0003-SM-3NMDP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21115
Brain Lower Grade Glioma_LGG_TCGA-DB-A64Q-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
bounding membrane of organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.002908
CDIPT	Pathway Commons Protein-Protein Interactions	1.0	null
EP300_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-KV-A74V-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Craniolenticulosutural dysplasia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.327
ZNF384	ENCODE Transcription Factor Targets	1.0	null
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.2522
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	1.35265
CTCF_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16258
cerebellar cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03381
PMC9270251-mmc2.xlsx-2_Filtered_DEGs_Control_vs_KD_2-Gene_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-V1D1-0008-SM-4JBIJ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.20238
LNCaP cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	-1.0	-2.01319
brain	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
BD-49-MD69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-5.98761
MDAMB157	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.67055
VPS4B	Pathway Commons Protein-Protein Interactions	1.0	null
9744_VPS25_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-1.08197
SP in perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.00751
Lung adenocarcinoma_LUAD_TCGA-55-7570-01A-11R-2039-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Foxo3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.7623
GTEX-Q2AG-0011-R7A-SM-2HMJP	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.10116
HCC1171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05569
PMC13137955-ijbsv22p4243s2.xlsx-Sheet1-hTFtarget_E2F3_E2F3	Rummagene Transcription Factor Associations 2026	1.0	null
cerebellar cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.6758
Cytosol	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GSE152699,GSE152723_0_v_1_vemurafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
nuclear lumen	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
15735024-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
Cytoplasmic vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GTEX-S4Q7-1026-SM-4AD75	GTEx Tissue Sample Gene Expression Profiles	1.0	0.944816
suz12_17339329_mouse_embryonic_stem_cell_es_cell_lof_mouse_gpl1261_gse31354	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.166299
HNF4A	ENCODE Transcription Factor Targets	1.0	null
PMC6438015-13148_2019_651_MOESM7_ESM.xlsx-Sheet1-Table_S2_Genes_exhibiting_both_significantly_increased_promoter_methylation_and_significantly_lowered_expression_in_CRISPR_TET2-KO_cells_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
KDM5B	ChEA Transcription Factor Targets	1.0	null
H3K9ac_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-SR-A6MX-05A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BA-46-YF32_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.723636
BCL3	ENCODE Transcription Factor Targets	1.0	null
E2F6_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREB1	ENCODE Transcription Factor Targets	1.0	null
GNAS	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-XGQ4-1326-SM-4GIDU	GTEx Tissue Sample Gene Expression Profiles	1.0	1.14014
CEBPB-22108803-LS180-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
ELK1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.9136
hsa-miR-1226	TargetScan Predicted Conserved microRNA Targets	1.0	0.241055
H3K4me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
XBP1_01_203	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.60143
GTEX-T6MN-0011-R9A-SM-32QOZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.94838
RALA	Pathway Commons Protein-Protein Interactions	1.0	null
AD-51-SS86_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.470742
H2AFZ_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
membrane-enclosed lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
FOSL2::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3957
GSE240386,GSE242143_8_v_6_morc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_WI38_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
SELENBP1	Pathway Commons Protein-Protein Interactions	1.0	null
NF2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE201239_6_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
XRN2-22483619-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
ZBTB33	ENCODE Transcription Factor Targets	1.0	null
GTEX-WCDI-0008-SM-47JYE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00359
GSE142210_2_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Golgi cisterna	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.51
ESCRT III complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	3.183
TTC19	Pathway Commons Protein-Protein Interactions	1.0	null
negative regulation of epidermal growth factor-activated receptor activity	GO Biological Process Annotations 2023	1.0	null
496100486_PCx_no dementia_no TBI_86_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.16815
H3K4me1_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.039324
GSE201309_5_v_0_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Tbx6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	24.6119
disease	GWASdb SNP-Disease Associations	1.0	0.02383
PTK2	Pathway Commons Protein-Protein Interactions	1.0	null
MTOR	Pathway Commons Protein-Protein Interactions	1.0	null
biological regulation	GO Biological Process Annotations 2015	1.0	null
GTEX-WFG8-1326-SM-4LVN3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.930486
GTEX-QDVN-1326-SM-48TZ3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.20573
Brain stem	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
K562_Amisulpride_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.019012
GSE227127_1_v_0_diclofenac_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.62
SIX5_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZZZ3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIN3A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA4_INACTIVATION_GDS3663_519_mouse_Endothelial-derived cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Viral infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.426
H3K9ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-XQ3S-0001-SM-4B64K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.16879
H3K4me2_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_choroid plexus epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
k562	HPA Cell Line Gene Expression Profiles	1.0	1.35824
MDAMB361	CCLE Cell Line Gene CNV Profiles	-1.0	-2.17921
USF1_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SYNJ2BP	Pathway Commons Protein-Protein Interactions	1.0	null
A549_Regorafenib_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0145873
IZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.19678
GTEX-NPJ7-0011-R11A-SM-2I3E8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.11821
H4K5ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
OF-05-CB18_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.419391
AD-58-PW17_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205088
ESCRT II complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	3.515
PLEKHA1	Pathway Commons Protein-Protein Interactions	1.0	null
Rectum adenocarcinoma_READ_TCGA-AG-3725-11A-01R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
6229_PEX1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.583953
intracellular	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
CALU-6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.888168
POLR2AphosphoS2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3453-01A-02R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE165560_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
retromer, cargo-selective complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.658
mitochondrion	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.03318
SRRM3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.80259
GSE158834_7_v_3_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAX_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PL45	CCLE Cell Line Gene CNV Profiles	1.0	1.71085
ARAP3	Pathway Commons Protein-Protein Interactions	1.0	null
NCIH2066	CCLE Cell Line Gene CNV Profiles	1.0	1.43089
H3K36me3_GM06990_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHAGOK1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.69886
hematopoietic stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.063351
primary metabolic process	GO Biological Process Annotations 2015	1.0	null
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	-2.3084
GTEX-U3ZH-1726-SM-3DB79	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.18026
epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.390421
LE-60-VC29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.24306
AC-83-LN99_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.35694
CEBPD_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
adult stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.058836
Endocrine gland cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.181
H3K4me3_GM12875_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RB1	Pathway Commons Protein-Protein Interactions	1.0	null
HCT-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A3M2-01A-21R-A22K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-UTHO-0011-R3A-SM-3GIK8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.994898
SU-DHL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.76445
496100580_PCx_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	2.61064
GTEX-WFON-0001-SM-3P61W	GTEx Tissue Sample Gene Expression Profiles	1.0	2.11203
Syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.243
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A3A9-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PANC1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.82052
H3K4me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
cerebellar cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.851824
GSE123002_0_v_1_srsf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE167956_4_v_0_trim28_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K79me2_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-504	TargetScan Predicted Conserved microRNA Targets	1.0	0.303626
CPC-N	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5326
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IM-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC8755441-mmc3.xlsx-IRF7-Up-ezh2_IRF7	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-WVLH-0011-R7A-SM-3MJFB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06696
DYNC1LI1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE166783_3_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
regulation of macromolecule biosynthetic process	GO Biological Process Annotations 2015	1.0	null
H3K4me3_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
K562_AZD1480_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0176321
GTEX-XMD1-0011-R10A-SM-4AT4A	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.942232
GSE158834_10_v_4_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2A2-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
bodies	GeneRIF Biological Term Annotations	1.0	null
inferolateral temporal cortex (area TEv, area 20)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.44569
MHH-NB-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.60724
CE-69-HJ13_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206983
EZH2_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hemocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.191
ARID3A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZFPL1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-XMD1-0011-R1A-SM-4AT4C	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.50812
TBL1XR1	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_CD8 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE86507,GSE86509_4_v_8_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SRF_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary auditory cortex (core)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.65658
Mesothelioma_MESO_TCGA-TS-A7PB-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-U8XE-0626-SM-3DB8U	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.41892
HNF1A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.2363
WE-48-PP43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-4.48597
PK-15 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.973
CHD2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF675	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	46.1445
YF-00-IN39_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.219992
FAM129B	Pathway Commons Protein-Protein Interactions	1.0	null
ELK1-19687146-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
SPI1-23127762-K562-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
POLR2A_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE154197_1_v_0_ints13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBP	ENCODE Transcription Factor Targets	1.0	null
SP4	ENCODE Transcription Factor Targets	1.0	null
KMM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
hsa-miR-4661-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.31417
NR3C1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6345
EM-2	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.23813
NCI-H2081	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
SP1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SEC61B	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-VUSG-2826-SM-4KKZM	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.976186
DCP1A-22483619-HELA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
CEBPD_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KNS-62	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-4.8007
female reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
FOXE1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	69.1565
regulation of cellular biosynthetic process	GO Biological Process Annotations 2015	1.0	null
E2F1-20622854-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
preweaning lethality, complete penetrance	IMPC Knockout Mouse Phenotypes	1.0	null
GTEX-NL3H-0011-R5a-SM-2I3GB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.09686
DKMG	CCLE Cell Line Gene Expression Profiles	-1.0	-1.72545
skin	GTEx Tissue Gene Expression Profiles	1.0	0.835825
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2932_RIPOR1_P1	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.568558
single-organism process	GO Biological Process Annotations 2015	1.0	null
FGD3	Pathway Commons Protein-Protein Interactions	1.0	null
RAC1	Pathway Commons Protein-Protein Interactions	1.0	null
CTNND1	Pathway Commons Protein-Protein Interactions	1.0	null
CC-17-JL38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.974531
Nurse cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.868
GTEX-PVOW-0011-R5A-SM-32PL7	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.900395
OXSR1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K27ac_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SUM225CWN	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.596633
ELF1_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5107-01A-01R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-Q1-A5R3-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
plant-type vacuole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.86
GTEX-PVOW-0426-SM-2XCF8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.993562
pronephros	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.676172
CHD1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YKT6	Pathway Commons Protein-Protein Interactions	1.0	null
PANC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
BCCIP	Pathway Commons Protein-Protein Interactions	1.0	null
GSE230744,GSE237803_5_v_3_hira_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-FB-A5VM-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-66-2756-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_BE2C_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE57871_6_v_9_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cytoplasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.565923
POR_KO_GDS1678_762_mouse_Jejunum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
AP3D1	Pathway Commons Protein-Protein Interactions	1.0	null
animal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.53602
GSE133683_1_v_0_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-T8EM-0526-SM-4DM64	GTEx Tissue Sample Gene Expression Profiles	1.0	1.33537
NE-20-WM78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.84631
GTEX-XQ8I-1526-SM-4BOOH	GTEx Tissue Sample Gene Expression Profiles	1.0	0.872609
SK-N-DZ	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.949738
HOXB13	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.6901
hypoglossal nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.851884
VDR-23849224-CD4+-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
lateral tuberal nuclei	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.891845
GSE210718_1_v_0_shmt2_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_cardiac muscle cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEAD4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100625_FWM_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.05452
GSE119978,GSE180930_2_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE207787_3_v_2_pdha1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_HeLa-S3_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
H3K4me3_fibroblast of upper leg skin_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1954	COSMIC Cell Line Gene Mutation Profiles	1.0	null
ETS1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PVOW-0008-SM-48TE8	GTEx Tissue Sample Gene Expression Profiles	1.0	1.13359
LNCaP-Clone-FGC	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.72462
ETS2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3238
ZNF143_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.051
2044_DBR1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.951543
WASH2P	Pathway Commons Protein-Protein Interactions	1.0	null
molecular_function	GO Molecular Function Annotations 2015	1.0	null
CREM	ChEA Transcription Factor Targets	1.0	null
GAA	Pathway Commons Protein-Protein Interactions	1.0	null
HD-29-LW24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.1762
H3K4me3_HEK293_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.921439
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E7-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
WWP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.35736
H3K4me3_fibroblast of villous mesenchyme_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC12171002-jcav16p2578s1.pdf-74-ZFP41_ZFP41	Rummagene Transcription Factor Associations 2026	1.0	null
spinal trigeminal nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.07055
H3K4me3_HepG2_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
APPL2	Pathway Commons Protein-Protein Interactions	1.0	null
STXBP2	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_olfactory bulb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPA-20513432-MACROPHAGES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.051795
H3K4me3_HL-60_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Cardiovascular Diseases	HuGE Navigator Gene-Phenotype Associations	1.0	null
COPB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.13536
MECOM-23826213-KASUMI-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
PMC6319725-pone.0204197.s006.xlsx-Table_S2-S2_TABLE_-_Operon_Expression_and_SOM_clustering_data_for_Gene_Set_identified_by_ANOVA_p_0_005_1005_genes_FDR_8_8_GRHL3	Rummagene Transcription Factor Associations 2026	1.0	null
PRAF2	Pathway Commons Protein-Protein Interactions	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A194-01A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
integument	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
EP300_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
K562_Lenalidomide_1µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0158218
GSE104508_0_v_1_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC12486367-Supplementary_Data2.pdf-162-GPBP1L1_GPBP1L1	Rummagene Transcription Factor Associations 2026	1.0	null
ASAH1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.6688
H3K27ac_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SIN3A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BLOC1S4	Pathway Commons Protein-Protein Interactions	1.0	null
hek293	HPA Cell Line Gene Expression Profiles	1.0	1.80634
A549_Mercaptopurine_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0117643
PMC12697342-jem_20250471_tables3.xlsx-ileal_M-ILF_1_TRC-Gene_FOXK2	Rummagene Transcription Factor Associations 2026	1.0	null
locus ceruleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.979792
POLR2A_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE152937_6_v_5_slc16a13_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
IZ in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.924021
H3K79me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.930839
CD4_Naive_Primary_Cells	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	-1.0	-1.45404
RORC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.7638
H3K4me3_CD3 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
REST_Panc1_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GE-47-OO30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.482159
A549_Ivosidenib_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0167807
DOCK6	Pathway Commons Protein-Protein Interactions	1.0	null
Hybridoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.267
RHOXF2	Pathway Commons Protein-Protein Interactions	1.0	null
GABPA_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
leukemia cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054258
SPI1-23127762-K562-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
CD-35-BD44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.253275
raphe nuclei of medulla	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.97054
Clathrin coat	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.771
SRF_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
orbital frontal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.45189
Endolysosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.703
PMC6932815-ppat.1007634.s015.xlsx-ST5_DGE_ELF1-R8AvIFN48-mock_lfc-external_gene_name_ELF1	Rummagene Transcription Factor Associations 2026	1.0	null
H3K9ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-889	TargetScan Predicted Conserved microRNA Targets	1.0	1.26663
NOB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61302
ESR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.01858
YIF1A	Pathway Commons Protein-Protein Interactions	1.0	null
XRN2-22483619-HELA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE158458_2_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HOXC9-25013753-NEUROBLASTOMA BE2-C-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_HEK293_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
IZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-3.39573
FOXO3-22982991-MACROPHAGES-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
abnormal emotion/affect behavior	GWASdb SNP-Phenotype Associations	1.0	0.263136
H3K4me3_Caco-2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NAPA	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-UTHO-0011-R1A-SM-3GIJO	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.19805
primary somatosensory cortex (area S1, areas 3,1,2)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.955389
GTEX-NFK9-0006-SM-3GACS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.44883
MCEE	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23499
GSE166783_8_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
HCT-15	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GTEX-U3ZG-0006-SM-47JWX	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.12307
POLR2A_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KDR_knockdown_119_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.33236
Vesicle-mediated transport	Reactome Pathways 2024	1.0	null
GTEX-QESD-0006-SM-2I5G6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.934621
primary somatosensory cortex (area S1, areas 3,1,2)_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.60246
H3K4me3_HCT116_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
POLR2AphosphoS5_SK-N-MC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
lower limb region of M1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.33109
OSBPL3	Pathway Commons Protein-Protein Interactions	1.0	null
extracellular vesicular exosome	GO Cellular Component Annotations 2015	1.0	null
MAPK1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE215351,GSE215794_7_v_0_kdm8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
SKES1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.50749
7441_RPL17_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.724353
ATP6V1H	Pathway Commons Protein-Protein Interactions	1.0	null
organelle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.835515
GSE113221,GSE113968_6_v_1_prdm1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZNF143_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.40071
H3K4me2_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE165548_2_v_5_gemcitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC12364684-DataSheet1.pdf-22-ENSG00000130522_JUND	Rummagene Transcription Factor Associations 2026	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9H3-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_foreskin fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO 320DM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.08977
GABPA_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-X5EB-2326-SM-46MW5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.12793
Cytoplasmic vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.57
SP in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.953308
CTCF_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XYKS-0002-SM-4BRWN	GTEx Tissue Sample Gene Expression Profiles	1.0	1.77337
PMC11627398-pone.0315219.s005.xlsx-MTF1-symbol_MTF1	Rummagene Transcription Factor Associations 2026	1.0	null
KDM5B	ENCODE Transcription Factor Targets	1.0	null
CTCF_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052033
H3K4me3_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FE-64-KC49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.243023
YY1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-NL3H-0011-R7a-SM-2I3G5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.91284
UBTF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE79291_1_v_2_streptozotocin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EP300_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE200352_1_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VPS25	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24816
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
EHD1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-OXRK-0006-SM-2HML1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.830842
FLI1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Disease	Reactome Pathways 2024	1.0	null
GSE125014_6_v_5_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GABPA_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
macromolecule localization	GO Biological Process Annotations 2015	1.0	null
NFATC3_01_166	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	9.81504
SK-6 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.915
ACOT11	Pathway Commons Protein-Protein Interactions	1.0	null
abnormal embryo size	MGI Mouse Phenotype Associations 2023	1.0	null
H3K4me1_CD4+ CD25+ CD127- Treg Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
JHOC5	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
GTEX-T5JW-1326-SM-4DM5G	GTEx Tissue Sample Gene Expression Profiles	1.0	1.16017
CTCF_astrocyte of the cerebellum_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NE-34-OZ69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.225519
abnormality of the nervous system	GWASdb SNP-Phenotype Associations	1.0	0.039248
GSE196835_0_v_1_ddx1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GABPA_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VD-88-MW70_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.6828
COMMD3	Pathway Commons Protein-Protein Interactions	1.0	null
multivesicular body assembly	GO Biological Process Annotations 2023	1.0	null
GTEX-WL46-2826-SM-3LK81	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.12077
dorsolateral prefrontal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.39675
SPI1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETV2::HOXB13	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.8574
NCSTN	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_CD4 Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Neurodegenerative disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.434
intracellular organelle part	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GADD45GIP1	Pathway Commons Protein-Protein Interactions	1.0	null
ETV2::DRGX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.2185
GTPBP1	Pathway Commons Protein-Protein Interactions	1.0	null
cellular protein localization	GO Biological Process Annotations 2015	1.0	null
NEDD1	Pathway Commons Protein-Protein Interactions	1.0	null
lateral posterior nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.916768
ZC3H11A	ENCODE Transcription Factor Targets	1.0	null
PCTP	Pathway Commons Protein-Protein Interactions	1.0	null
496100463_FWM_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.02877
NR2C1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.0188
TCF7L1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.652
MAP1S	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-35-4122-01A-01R-1107-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellum	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
plant-type vacuole membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.678
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.92847
H3K4me3_fibroblast of pulmonary artery_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FUOV1	CCLE Cell Line Gene Expression Profiles	1.0	2.19546
posteroventral (inferior) parietal cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.61722
Polydactyly	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.057
ZNF384_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIG-M5	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.46398
H2AFZ_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH211	CCLE Cell Line Gene Expression Profiles	1.0	1.8572
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YD-49-HM53_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-5.24113
HCC1143	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.0413
cell part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.395098
estradiol_homo sapiens_gpl570_gse16683	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
JHH-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5921
respiratory epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.568025
GTEX-O5YV-2026-SM-2D7VS	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.12394
RAD21	ENCODE Transcription Factor Targets	1.0	null
EPHA4_knockout_226_GSE34430	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.85786
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
CORVET complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.258
BE-81-QL64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.51696
frontal pole, right, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.0493
H3K4me3_cardiac fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.023
CF-61-EH59_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.348454
NCI-H2228	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.882838
cargospecific	GeneRIF Biological Term Annotations	1.0	null
mediodorsal nucleus of thalamus_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.991863
SNU-175	COSMIC Cell Line Gene Mutation Profiles	1.0	null
A-375	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.886713
REST_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KLC1	Pathway Commons Protein-Protein Interactions	1.0	null
ELMO3	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-V1D1-0006-SM-3NMCE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.11975
DOCK1	Pathway Commons Protein-Protein Interactions	1.0	null
8MGBA	CCLE Cell Line Gene Expression Profiles	1.0	1.45618
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.25164
HSPA1B	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-WL46-0011-R7A-SM-3LK7X	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.833116
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.04839
Lung adenocarcinoma_LUAD_TCGA-50-6597-01A-11R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JUN-27471255-CHONDROCYTES-MOUSE-RIB	ChEA Transcription Factor Targets 2022	1.0	null
496100616_FWM_no dementia_TBI_84_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.09392
cerebellar cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.97876
H3K79me2_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KIF20B	Pathway Commons Protein-Protein Interactions	1.0	null
Hypodermal seam cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.864
HNF4A-19822575-HepG2-human	ChEA Transcription Factor Binding Site Profiles	1.0	null
COPG1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC3964217-oncotarget-05-417-s001.xls-Supplemental_Table_3-GABPA-bound_promoters_GABPA	Rummagene Transcription Factor Associations 2026	1.0	null
CHD3	Pathway Commons Protein-Protein Interactions	1.0	null
HLA-B	Pathway Commons Protein-Protein Interactions	1.0	null
RAB10	Pathway Commons Protein-Protein Interactions	1.0	null
H3K36me3_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBC1D9B	Pathway Commons Protein-Protein Interactions	1.0	null
GSE169152_5_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
KMH2	CCLE Cell Line Gene Expression Profiles	-1.0	-2.07399
intracellular non-membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
PKN2	Pathway Commons Protein-Protein Interactions	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2MD-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SRF_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
M059K	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.1562
negative regulation of protein tyrosine kinase activity	GO Biological Process Annotations 2023	1.0	null
SMAD2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	14.7326
hsa-miR-3689a-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
Cytoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
STK11_knockout_278_GSE34866	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.44388
RANBP1	Pathway Commons Protein-Protein Interactions	1.0	null
TAL1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RMGI	CCLE Cell Line Gene Expression Profiles	1.0	3.40684
Axonemal dynein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.54
SNX15	Pathway Commons Protein-Protein Interactions	1.0	null
RAD21_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SH3GLB1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-R55D-1126-SM-48FEB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.89653
RAD21_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12873_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYADM	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03315
GSE200673,GSE200691_1_v_3_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SRF_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATF3_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE138945,GSE138947_0_v_1_mboat7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of gingiva_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
nucleoplasm	GO Cellular Component Annotations 2015	1.0	null
POLR2A_GM12891_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WCDI-0002-SM-3P61U	GTEx Tissue Sample Gene Expression Profiles	1.0	0.99248
POLR2AphosphoS5_SK-N-MC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary motor cortex (area M1, area 4)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.855814
ZNF524	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.3184
Drug-Induced Liver Injury	CTD Gene-Disease Associations	1.0	1.32905
GTEX-TSE9-0011-R1A-SM-3DB7E	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.11835
EP300_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AC-92-HS43_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.249484
TAF7	ENCODE Transcription Factor Targets	1.0	null
RIC8A	Pathway Commons Protein-Protein Interactions	1.0	null
MAZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VPS33B	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
KYSE-70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.0033
MCF7_Fasudil_100nM_24h	Sci-Plex Drug Perturbation Signatures	-1.0	-0.0153786
REST_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NAAA	Pathway Commons Protein-Protein Interactions	1.0	null
USF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hepatocellular carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.061
GTEX-QVJO-0011-R9A-SM-2S1QH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.13911
GSE116299_6_v_1_folic acid_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
4944_MED21_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.576804
Golgi trans cisterna	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.792
GSE154767_4_v_3_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
STXBP3	Pathway Commons Protein-Protein Interactions	1.0	null
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
GTEX-QEG4-0626-SM-2S1OY	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.886356
Kidney Chromophobe_KICH_TCGA-KN-8419-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-Q2AG-0011-R9A-SM-2HMJ6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.8725
GSE239578_0_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-WK11-0006-SM-3NB3J	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.00372
COLO-818	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.953825
JUND_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
increased apoptosis	MGI Mouse Phenotype Associations 2023	1.0	null
A549	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	0.830902
TBP_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-75-5147-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MDA-MB-453	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.38694
GSE248501_1_v_0_mst1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CB-31-UO16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.50319
ARF1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_choroid plexus epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE153443_1_v_3_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE233548_2_v_0_plscr1_human	RummaGEO Gene Perturbation Signatures	1.0	null
nucleolus	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
ARAP1	Pathway Commons Protein-Protein Interactions	1.0	null
LRBA	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-W5X1-0001-SM-3P61V	GTEx Tissue Sample Gene Expression Profiles	1.0	1.53699
NR2F2	ENCODE Transcription Factor Targets	1.0	null
GSE220058,GSE220059_0_v_1_prrc2b_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_MCF-7_hg19_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
GTEX-PWN1-1626-SM-2S1OL	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.01038
HEPG2	CCLE Cell Line Gene Expression Profiles	1.0	1.50886
H3K4me1_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
AB-18-YN11_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.44375
POLR2A_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
kidney	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064489
GSE185944_5_v_4_pth1r_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SIRT6	ENCODE Transcription Factor Targets	1.0	null
temporal pole, right, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.996692
protein localization to organelle	GO Biological Process Annotations 2015	1.0	null
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
EVSA-T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.21417
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-A641-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hek-293t cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.448731
OSBP	Pathway Commons Protein-Protein Interactions	1.0	null
TTI1	Pathway Commons Protein-Protein Interactions	1.0	null
Nr1h2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	21.2387
SKP1	Pathway Commons Protein-Protein Interactions	1.0	null
DC-47-KV62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.539233
Exocyst	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.875
H3K4me3_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE113221,GSE113968_4_v_1_prdm1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TBL1XR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MXI1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of nucleic acid-templated transcription	GO Biological Process Annotations 2015	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-JW-A5VK-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pupa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.78
ZMIZ1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6138639-41467_2018_6247_MOESM4_ESM.xlsx-S1_1_ZZZ3_ChIP-seq_peaks-Nearest_TSS_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
CAL-39	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.07123
mediodorsal nucleus of thalamus_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.11857
H3K4me3_kidney epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Mafb	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.172
non-membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
SIN3A_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ERGIC2	Pathway Commons Protein-Protein Interactions	1.0	null
ACAP2	Pathway Commons Protein-Protein Interactions	1.0	null
SNX27	Pathway Commons Protein-Protein Interactions	1.0	null
A549_INO-1001_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0163985
LGMN	Pathway Commons Protein-Protein Interactions	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-JW-A69B-01A-11R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
midbrain reticular formation, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.06399
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
extracellular vesicle	GO Cellular Component Annotations 2015	1.0	null
FNBP1L	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
striatum_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.23118
multivesicular	GeneRIF Biological Term Annotations	1.0	null
CHMP5	Pathway Commons Protein-Protein Interactions	1.0	null
UNC93B1	Pathway Commons Protein-Protein Interactions	1.0	null
CREB1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-N7MT-0011-R2a-SM-2I3GI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.10756
hsa-miR-4308	TargetScan Predicted Conserved microRNA Targets	1.0	0.541706
GABPA_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TGFBR2_knockout_296_GSE22989	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.92949
HCC1011	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38814
Sarcoma_SARC_TCGA-DX-A8BN-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
APIP	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-RVPV-0526-SM-47JYL	GTEx Tissue Sample Gene Expression Profiles	1.0	1.8995
GTEX-N7MS-0008-SM-4E3JI	GTEx Tissue Sample Gene Expression Profiles	1.0	1.29551
SB-94-ZA83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.220254
cellular macromolecule biosynthetic process	GO Biological Process Annotations 2015	1.0	null
WT1-20215353-NEPHRON-PROGENITOR-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Helam	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.922
BECKER	CCLE Cell Line Gene Expression Profiles	-1.0	-3.12825
TAF1_GM12892_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-DV-A4VX-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-WY7C-0006-SM-3NB3L	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17017
Ciliary tip	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.165
H3K27ac_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
BHLHE40_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
myeloid progenitor cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.065357
ANKFY1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MYC_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A7B0-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6877688__F4	PFOCR Pathway Figure Associations 2024	1.0	null
Liver cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.15
GTEX-N7MT-0011-R8a-SM-2I5GU	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.862879
C3A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.65038
H3K27ac_CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
second	GeneRIF Biological Term Annotations	1.0	null
GSE206502_2_v_1_igf2bp1_human	RummaGEO Gene Perturbation Signatures	1.0	null
BA-39-HG26_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.483099
anterior (rostral) cingulate (medial prefrontal) cortex_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.11808
WDR5-24793694-LNCAP-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Hmx1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	37.127
TAF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAB35	Pathway Commons Protein-Protein Interactions	1.0	null
DB-54-GQ68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.47064
JIMT1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.68973
MYC_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RIN1	Pathway Commons Protein-Protein Interactions	1.0	null
DA-35-DU85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.293652
GSE43041,GSE43044_0_v_1_ldb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-67-3770-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-X4XY-1726-SM-46MVO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21181
C170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
CTCF_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BF-97-LS55_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.307988
PPP1R7	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_Treg Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
AC-30-XU83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.209606
H3K4me1_mononuclear cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZNF263_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JHH6	CCLE Cell Line Gene Expression Profiles	-1.0	-1.78221
SHD	Pathway Commons Protein-Protein Interactions	1.0	null
ZBTB26	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.6853
ChIP_TRIM28_19339689	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
BC-13-OQ01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.385534
inner SZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.15945
H3K4me3_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PITPNM1	Pathway Commons Protein-Protein Interactions	1.0	null
EJM	CCLE Cell Line Gene CNV Profiles	1.0	1.3489
Central nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.123
H3K4me3_GM12878_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_Breast Myoepithelial Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CLTA	Pathway Commons Protein-Protein Interactions	1.0	null
VZ in subgenual cingulate neocortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.980907
ESCRT I complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	3.222
H3K79me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of lung_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-P4QT-1626-SM-2S1NP	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.934307
STAMBPL1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-WZTO-0011-R1B-SM-3NMAR	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.864279
GSE149264,GSE149267_4_v_5_trp53_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of skin of abdomen_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cytoplasmic vesicle membrane	GO Cellular Component Annotations 2025	1.0	null
GOLPH3	Pathway Commons Protein-Protein Interactions	1.0	null
Adrenocortical carcinoma_ACC_TCGA-OR-A5K5-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A673	CCLE Cell Line Gene Expression Profiles	-1.0	-1.66333
LYN	Pathway Commons Protein-Protein Interactions	1.0	null
HOXC6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.23142
FLOT1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_cardiac mesoderm_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
H3K23me2_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SP1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS2_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.61161
FD-62-ZB67_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.295477
H3K4me3_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-SE5C-0008-SM-4B64J	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830426
TBP_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2977-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Compound eye	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.999
MZ in posterodorsal (superior) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.33184
SEC22B	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-T5JC-0008-SM-4DM6A	GTEx Tissue Sample Gene Expression Profiles	1.0	1.07988
PICK1	Pathway Commons Protein-Protein Interactions	1.0	null
Nr1h4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.31
RHOA	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-7606-01A-11R-2090-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
subcuneiform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.911319
ELK1	ENCODE Transcription Factor Targets	1.0	null
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00441
Lung squamous cell carcinoma_LUSC_TCGA-63-5131-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
nucleus	GO Cellular Component Annotations 2015	1.0	null
7477_RPL7A_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.672963
H3K4me3_H7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
8618_SYF2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.504942
Erg	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	39.8528
Metencephalon	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
CASTOR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.428
SPI1_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-S7PM-0011-R6A-SM-3NM8F	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.40697
CA-68-KG29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.851522
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A7IG-01A-11R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE223893_1_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE115542_2_v_4_digoxin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	GO Biological Process Annotations 2025	1.0	null
GA-59-RW04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.22372
CTCF_A549_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.66091
ESO26	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.94536
Microvesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.389
H3K4me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RPS6KA1	Pathway Commons Protein-Protein Interactions	1.0	null
MD-86-UW46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.942236
WASH complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.627
CAPAN-1	COSMIC Cell Line Gene CNV Profiles	1.0	3.12177
RAP1A	Pathway Commons Protein-Protein Interactions	1.0	null
NEU1	Pathway Commons Protein-Protein Interactions	1.0	null
Endoplasmic reticulum exit site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.935
GTEX-OHPN-0011-R1A-SM-2I5GB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.15291
6229_PEX1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.595729
ZBTB33_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A549_Resveratrol_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.014338
A549_BMS-911543_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0140326
MZ in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.30643
phospholipid-translocating ATPase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.819
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.4972
H3K4me3_GM12866_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
VPS39	Pathway Commons Protein-Protein Interactions	1.0	null
paracentral lobule, anterior part, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.06676
ZFR	Pathway Commons Protein-Protein Interactions	1.0	null
ELF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.3413
EP300_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXA1	ENCODE Transcription Factor Targets	1.0	null
Coated membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.771
DC-51-WE27_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.346709
IFITM3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.77641
GSE227592_6_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
QE-79-XO29_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.519783
H3K4me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NUDC	Pathway Commons Protein-Protein Interactions	1.0	null
IM-95	COSMIC Cell Line Gene Mutation Profiles	1.0	null
CBX3	ENCODE Transcription Factor Targets	1.0	null
dorsolateral prefrontal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.40941
CFAP68	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0029
POLR2AphosphoS5_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PVOW-2626-SM-32PL8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.96297
OF-05-CB18_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.485939
GSE142210_11_v_8_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Outer dynein arm docking complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.782
GTEX-XUJ4-0004-SM-4BOQE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.92739
5494_NCBP2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.585037
IMR-32	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.19301
DLD-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
TBC1D15	Pathway Commons Protein-Protein Interactions	1.0	null
medial vestibular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.896463
CEBPB-26923725-CHIP-SEQ-HEMANGIOBLAST-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Ciliary plasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.771
H3K4me3_cardiac mesoderm_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-NL3H-0011-R3a-SM-2I3GL	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.01678
Kidney Chromophobe_KICH_TCGA-KN-8432-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-OHPL-1626-SM-2HMIR	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.93123
Lung adenocarcinoma_LUAD_TCGA-38-4631-01A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YY1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
striatum_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.0304
GSE224763_1_v_0_rif1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CISD2	Pathway Commons Protein-Protein Interactions	1.0	null
BET1	Pathway Commons Protein-Protein Interactions	1.0	null
JF-96-HH81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.374073
endosome lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.700863
adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053055
DCP1A-22483619-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE158834_7_v_5_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Female accessory gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.961
A549_S-Ruxolitinib_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0134329
H3K27ac_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PBX3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Amphisome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.517
cetuximab_homo sapiens_gpl570_gse21483	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
whole body	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
496100307_FWM_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.83497
PDCD6IP	Pathway Commons Protein-Protein Interactions	1.0	null
PMC10319804-41467_2023_38747_MOESM9_ESM.xlsx-KHSRP_KD_genes_down-gene_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K27ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
eGFP-JUNB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ERF::HOXB13	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.5211
GTEX-TSE9-0011-R7A-SM-3DB7P	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.933962
SEPT9	Pathway Commons Protein-Protein Interactions	1.0	null
Epidermal cell	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
endosome membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
4932_MED12_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.851075
POLR2A_GM18951_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PSEN1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-X62O-0005-SM-46MV1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.38996
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-GV_RFX-Unnamed_3_RFX1	Rummagene Transcription Factor Associations 2026	1.0	null
primary auditory cortex (core)_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.855378
SPI1	ENCODE Transcription Factor Targets	1.0	null
GTEX-V1D1-1026-SM-4JBHE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.36199
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.929933
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A11A-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAB8A	Pathway Commons Protein-Protein Interactions	1.0	null
Sensillum trichodeum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.93
CTCF	ENCODE Transcription Factor Targets	1.0	null
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.78027
H3K9ac_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
describe	GeneRIF Biological Term Annotations	1.0	null
GTEX-WOFM-1726-SM-3MJFA	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.863247
CTCF_GM19240_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EA-84-SC49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.200599
Liver hepatocellular carcinoma_LIHC_TCGA-ES-A2HT-01A-12R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.62
membrane-enclosed lumen	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.568
ZKSCAN1	ENCODE Transcription Factor Targets	1.0	null
TLN1	Pathway Commons Protein-Protein Interactions	1.0	null
Perturb_5938_KD_NCOA7_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-7.92668
CEBPD_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A549_Valproic acid sodium salt_100nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0136281
rectum_8a	HPA Tissue Sample Gene Expression Profiles	1.0	1.04995
E2F1	ChEA Transcription Factor Targets	1.0	null
MAPKAPK3	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-MH-A854-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.74
GTEX-SNOS-0626-SM-4DM5F	GTEx Tissue Sample Gene Expression Profiles	1.0	0.842764
ETV5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.726
H3K4me3_GM06990_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MBD4	ENCODE Transcription Factor Targets	1.0	null
Midbody	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.717
GSE233679_6_v_10_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BAIAP2	Pathway Commons Protein-Protein Interactions	1.0	null
blood cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052416
GTEX-SNMC-0926-SM-4DM5U	GTEx Tissue Sample Gene Expression Profiles	1.0	0.958915
GTEX-WRHU-1226-SM-4E3IJ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.5717
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
BA-39-HG26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.445597
SIN3A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XYKS-1526-SM-4BRUP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.40522
H3K4me3_LNCaP clone FGC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2795	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.991458
H3K4me3_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOS_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PDS5B	Pathway Commons Protein-Protein Interactions	1.0	null
H3K79me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Heart	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.86689
frontal pole, right, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.85976
RFX5_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cytoplasmic vesicle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.758
SP4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.39734
GTEX-QMR6-0011-R11A-SM-32PKK	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.00746
H3K4me1_CD4+ CD25- Th Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
cytoplasmic part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GABP-17652178-JURKAT-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
FAM118A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.52747
BRCA1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE148252_1_v_6_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
FLI1_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ULK3	Pathway Commons Protein-Protein Interactions	1.0	null
organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
MBD4_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MCF7	COSMIC Cell Line Gene Mutation Profiles	1.0	null
MET_knockout_261_GSE8747	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.81137
CTCF_WERI-Rb-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ASH2L-23239880-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me1_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
protein complex	GO Cellular Component Annotations 2015	1.0	null
primary auditory cortex (core)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.03735
BE-31-XV38_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.273943
H3K4me3_cardiac mesoderm_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
SU-DHL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.75489
2988_FBL_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.694712
PLEKHA7	Pathway Commons Protein-Protein Interactions	1.0	null
ARHGAP4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15121
GTEX-TML8-1526-SM-4DXUX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.897903
6534_POLR1B_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.539837
GSE48812_8_v_10_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of foreskin _hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PSMD12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10477
Garland cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.604
H3K4me3_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
pancreas	HPA Tissue Gene Expression Profiles	-1.0	-1.06472
u26684	HPA Cell Line Gene Expression Profiles	-1.0	-1.65927
PMC9992472-41467_2023_36735_MOESM7_ESM.xlsx-SOX11_ChIP_in_IMR-32-Unnamed_13_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
SEC61G	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2AphosphoS2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-OOBK-0008-SM-3NB27	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0788
HCC1171	CCLE Cell Line Gene CNV Profiles	1.0	1.50963
HeLa-S3 cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	-1.0	-1.5149
CTCF_WERI-Rb-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1	ENCODE Transcription Factor Targets	1.0	null
COLO 680N	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.78199
GSE158834_10_v_5_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CCND1	Pathway Commons Protein-Protein Interactions	1.0	null
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
Pyruvate kinase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.553
precentral gyrus, right, bank of the precentral sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.944686
PTPN9	Pathway Commons Protein-Protein Interactions	1.0	null
VDR	ChEA Transcription Factor Targets	1.0	null
orbital frontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.59297
intracellular organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
cellular nitrogen compound metabolic process	GO Biological Process Annotations 2015	1.0	null
SU-DHL-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.902461
GSE174498,GSE174500_0_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
cos-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.442962
OVISE	CCLE Cell Line Gene CNV Profiles	1.0	1.65475
cellular localization	GO Biological Process Annotations 2015	1.0	null
GTEX-TKQ1-0326-SM-4DXSM	GTEx Tissue Sample Gene Expression Profiles	1.0	1.26596
OSR2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.9652
GSE215351,GSE215794_1_v_0_kdm8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE226316_0_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SIN3A_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-NPJ7-0011-R9a-SM-2TC5R	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.09656
524_ARMC7_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.661837
NCI-H508	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.8498
ZNF727	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.80996
HCC1482	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.936345
PCYOX1	Pathway Commons Protein-Protein Interactions	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A65M-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-XBEW-1326-SM-4AT63	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1176
Lung squamous cell carcinoma_LUSC_TCGA-22-5491-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-P78B-1026-SM-3NMC4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.905242
BAZ1A	Pathway Commons Protein-Protein Interactions	1.0	null
H3K9ac_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-NPJ8-2626-SM-2D7W2	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.28195
MAZ_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SNOS-1226-SM-4DM5H	GTEx Tissue Sample Gene Expression Profiles	1.0	0.896611
4463_KPNA6_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.535951
LS 174T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.16593
Perturb_15424_KD_PXN_SRP199381	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-7.41587
FOSB::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.9604
embryonic lethality, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
H3K4me3_CD34 Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
hippocampus (hippocampal formation)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.31707
H3K36me3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCLAF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-R55F-1526-SM-2TF4X	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.23021
Lung squamous cell carcinoma_LUSC_TCGA-33-4582-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE161846,GSE161849_3_v_0_smarca4_human	RummaGEO Gene Perturbation Signatures	1.0	null
RABAC1	Pathway Commons Protein-Protein Interactions	1.0	null
RAB23	Pathway Commons Protein-Protein Interactions	1.0	null
Hoxd13	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	23.3157
H3K4me3_Brain Mid Frontal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K27ac_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.22353
REST_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1993	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.40833
GSE224599_0_v_1_tfcp2_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFIC_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CSNK2A2	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_kidney_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tonsil_8a1	HPA Tissue Sample Gene Expression Profiles	1.0	0.988415
EPB41L5	Pathway Commons Protein-Protein Interactions	1.0	null
7648_SAP18_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.51064
CHD1	ENCODE Transcription Factor Targets	1.0	null
GSE227698_5_v_3_g0s2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
posteroventral (inferior) parietal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.30202
BLOC1S5	Pathway Commons Protein-Protein Interactions	1.0	null
BronchialEpithelialCells	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.28752
PMC5651844-41467_2017_1173_MOESM10_ESM.xlsx-ZZZ3_occupied_genes-Supplementary_Data_7_ZZZ3_occupied_genes_and_overlaps_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
TNK1	Pathway Commons Protein-Protein Interactions	1.0	null
HCC1419	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.90431
extracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
ELF1_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-GV_RFX-Unnamed_2_RFX1	Rummagene Transcription Factor Associations 2026	1.0	null
cv-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.185763
amygdaloid complex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.00221
CAB39	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3427-01A-01R-0864-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ASPSCR1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE228263_0_v_1_elesclomol_human	RummaGEO Drug Perturbation Signatures	1.0	null
cognitive disorder	GWASdb SNP-Disease Associations	1.0	0.094113
mediodorsal nucleus of thalamus_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.08267
POLR2AphosphoS5_Panc1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_bone marrow macrophage_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
protein localization to vacuole	GO Biological Process Annotations 2015	1.0	null
GTEX-OHPM-0326-SM-33HCA	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.07551
GTEX-XV7Q-2126-SM-4BRVX	GTEx Tissue Sample Gene Expression Profiles	1.0	1.10096
GSE125014_6_v_2_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
primary auditory cortex (core)_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.32768
H3K9ac_Colonic Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GATA3	ENCODE Transcription Factor Targets	1.0	null
H3K9ac_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE193541_0_v_3_nifurtimox_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CSNK1A1	Pathway Commons Protein-Protein Interactions	1.0	null
CNN2	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B4-5835-01A-11R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RAB13	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-4863-11A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ESCRT complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	3.194
cellular macromolecule localization	GO Biological Process Annotations 2015	1.0	null
PMC5859872__F3	PFOCR Pathway Figure Associations 2023	1.0	null
GSE142210_9_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cytoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
JHH4	CCLE Cell Line Gene CNV Profiles	1.0	1.44548
H3K79me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MXI1	ENCODE Transcription Factor Targets	1.0	null
GTEX-PLZ6-0526-SM-3P61C	GTEx Tissue Sample Gene Expression Profiles	1.0	1.11614
MAX_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-U3ZM-0002-SM-3NMDM	GTEx Tissue Sample Gene Expression Profiles	1.0	1.65693
late endosome to vacuole transport via multivesicular body sorting pathway	GO Biological Process Annotations 2015	1.0	null
ANXA2	Pathway Commons Protein-Protein Interactions	1.0	null
Endosome lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.363
Bladder Urothelial Carcinoma_BLCA_TCGA-BL-A13J-11A-13R-A10U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
GSE171837_3_v_1_bortezomib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-P44H-0011-R4A-SM-2XCEW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.945889
STAT5A	Pathway Commons Protein-Protein Interactions	1.0	null
Cryptococcosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.069
MECOM	ChEA Transcription Factor Targets	1.0	null
ELF1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SFT2D3	Pathway Commons Protein-Protein Interactions	1.0	null
T-47D	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.42994
CB-16-SY72_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.639163
GSE214823,GSE214824_6_v_2_crtc2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_GM12864_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE142210_9_v_8_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RCHACV	CCLE Cell Line Gene Expression Profiles	-1.0	-2.40522
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
gata3_21892208_mda_mb_231_gof_human_gpl570_gds4080	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.458127
membrane fission	GO Biological Process Annotations 2025	1.0	null
FRMPD3	Pathway Commons Protein-Protein Interactions	1.0	null
SW684	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H2AFZ_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOSL2_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
striatum_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.965074
viscus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052235
H3K79me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AC-83-LN99_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.279492
mapping	GeneRIF Biological Term Annotations	1.0	null
CTCF_MCF-7_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hippocampus (hippocampal formation)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.920105
MYBL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZFP42-18358816-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
COPB1	Pathway Commons Protein-Protein Interactions	1.0	null
ADISSP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24596
GTEX-QEG4-0006-SM-2I5FY	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.18643
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.901406
ANAPC7	Pathway Commons Protein-Protein Interactions	1.0	null
A549_Momelotinib_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0106584
REST	ChEA Transcription Factor Targets	1.0	null
PPARG	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K9ac_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ZZZ3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7403_RNMT_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.52531
intracellular membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.53454
PMC8650352-JCB_202012097_DataS1.xlsx-VHL_KD_filteredPeptides-Gene_names_AR	Rummagene Transcription Factor Associations 2026	1.0	null
PMC5652707-oncotarget-08-76305-s003.xlsx-Sheet1-FOXM1_FOXM1	Rummagene Transcription Factor Associations 2026	1.0	null
RAD21_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-Q2AI-0008-SM-48U2H	GTEx Tissue Sample Gene Expression Profiles	1.0	1.47182
TNFAIP8	Pathway Commons Protein-Protein Interactions	1.0	null
GSE158834_10_v_5_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
DOR 13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.07461
POLR2AphosphoS5_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
striatum_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.929982
STAT5A	ENCODE Transcription Factor Targets	1.0	null
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.901359
RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	52.1311
PHLDB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27183
central nuclear group	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.18587
pioglitazone_homo sapiens_gpl570_gds4132	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GTEX-XQ3S-1126-SM-4BOPK	GTEx Tissue Sample Gene Expression Profiles	1.0	3.01233
GSE242083,GSE242098_3_v_5_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE147626_3_v_1_glutathione_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
STAT3_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XUZC-1326-SM-4BRV2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01184
posteroventral (inferior) parietal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.3975
H3K4me3_CD4+ CD25- CD45RA+ Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
macroautophagy	GO Biological Process Annotations 2023	1.0	null
GSE155800_1_v_0_imatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
YY1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1143	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.90431
STAT1-19122651-HELAS3-HUMAN-CERVICALCANCER	ChEA Transcription Factor Targets 2022	1.0	null
NRAS	Pathway Commons Protein-Protein Interactions	1.0	null
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.844688
PITPNA	Pathway Commons Protein-Protein Interactions	1.0	null
GSE88819_6_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE223893_11_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
non-membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
GTEX-X4XX-0626-SM-3NMC1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.26625
FOXD2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.6816
Edinger-Westphal nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.60919
H3K4me1_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
EFM-19	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.0033
GSE198165,GSE198166_0_v_2_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-RVPU-0011-R7A-SM-2XCAB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.51508
Brain Lower Grade Glioma_LGG_TCGA-DU-7304-02A-12R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-OXRP-0926-SM-48TC1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.08372
rab9	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.344
ELK3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.6966
E2F6	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-Q2-A5QZ-01A-11R-A28H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE179002_3_v_1_caprin1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NCIH1299	CCLE Cell Line Gene CNV Profiles	-1.0	-1.52661
H3K4me3_fibroblast of pedal digit skin_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEx Lung 20-29 vs 50-59	GTEx Tissue-Specific Aging Signatures	-1.0	-4.17903
NCI-H596	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38714
VPS16	Pathway Commons Protein-Protein Interactions	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-46-6026-01A-11R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
frontal pole, right, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.62408
GTEX-X585-0011-R11B-SM-46MUZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.58774
MAX_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.878008
CHP212	CCLE Cell Line Gene CNV Profiles	1.0	2.18693
Brain - Amygdala	GTEx Tissue Gene Expression Profiles 2023	1.0	1.15521
GTEX-WZTO-0006-SM-3NM9T	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.78591
HJURP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05105
intracellular membrane-bounded organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
body	GeneRIF Biological Term Annotations	1.0	null
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
granulocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.148394
FOXA1	JASPAR Predicted Transcription Factor Targets	1.0	null
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KA-29-AB08_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.711144
organelle	GO Cellular Component Annotations 2015	1.0	null
H3K9ac_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
LRP10	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_Caco-2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-PW2O-0006-SM-2I3DV	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.01192
SCAMP4	Pathway Commons Protein-Protein Interactions	1.0	null
RFX5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188382_4_v_1_sirt5_human	RummaGEO Gene Perturbation Signatures	1.0	null
REST_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
inferior frontal gyrus, opercular part, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.41153
escrtii	GeneRIF Biological Term Annotations	1.0	null
Frontotemporal dementia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.321
GTEX-RU1J-1726-SM-2TF5S	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.4619
OVKATE	CCLE Cell Line Gene CNV Profiles	-1.0	-1.6563
HEP G2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.866283
Acute Myeloid Leukemia_LAML_TCGA-AB-2969-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RHEB	Pathway Commons Protein-Protein Interactions	1.0	null
FOXC1	JASPAR Predicted Transcription Factor Targets	1.0	null
Gastric cecum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.536
9680_UTP14A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.63532
GTEX-X4XX-0011-R5A-SM-46MWN	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.836529
BCAP29	Pathway Commons Protein-Protein Interactions	1.0	null
striatum_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.04555
escrt complex	GO Cellular Component Annotations 2015	1.0	null
EP300_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE212299_3_v_0_abi3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Manchette	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.019
SEPT8	Pathway Commons Protein-Protein Interactions	1.0	null
XBP1_OE_GDS5065_273_mouse_F424a adipocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
POLR2AphosphoS5_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
7210_RCOR1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.541925
POLR2AphosphoS5_U-87 MG_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ERLIN1	Pathway Commons Protein-Protein Interactions	1.0	null
CREM-20920259-GC1-SPG-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
POLR2A_K562_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KLC2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE192771_2_v_3_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
intracellular part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
RELA	ENCODE Transcription Factor Targets	1.0	null
FA-63-WI26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.214459
SPRR2F	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.2778
CX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.99836
RRAS	Pathway Commons Protein-Protein Interactions	1.0	null
SMEK1	Pathway Commons Protein-Protein Interactions	1.0	null
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.349
CTCF_medulloblastoma_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EKLF-21900194-ERYTHROCYTE-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GOLT1B	Pathway Commons Protein-Protein Interactions	1.0	null
JUN_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-S7PM-0526-SM-3NM92	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.840054
HDAC2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE139239_3_v_5_ddr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.95778
PAPOLG	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15338
parafascicular nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.928404
GTEX-OXRO-0006-SM-2I5EM	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.36937
GTEX-NL3H-0011-R11A-SM-2I3E6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.06597
organism form	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.41848
496100452_HIP_possible Alzheimer's disease_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.12464
GSE196699_2_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
17009876-tableS3b	GeneSigDB Published Gene Signatures	1.0	null
GTEX-X88G-0006-SM-47JX5	GTEx Tissue Sample Gene Expression Profiles	1.0	0.837337
H3K27ac_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
UMC-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.16042
GAPVD1	Pathway Commons Protein-Protein Interactions	1.0	null
BD-96-HO33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.2516
lateral hypothalamic area, anterior region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.12567
SAR1A	Pathway Commons Protein-Protein Interactions	1.0	null
SEPT7	Pathway Commons Protein-Protein Interactions	1.0	null
PLA2G4A	Pathway Commons Protein-Protein Interactions	1.0	null
A549_GSK J1_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0135276
HB-54-ZC59_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.372514
POLR2A_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DOCK5	Pathway Commons Protein-Protein Interactions	1.0	null
GSE99875_2_v_0_everolimus_human	RummaGEO Drug Perturbation Signatures	1.0	null
449_ARFGEF2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.534108
GTEX-WWYW-0011-R11A-SM-3NB38	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.07745
GSE146982_3_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
dorsal lateral geniculate nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.67678
H3K4me3_epithelial cell of esophagus_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
AC-50-FR41_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.223636
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
RAB7A	Pathway Commons Protein-Protein Interactions	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	1.60131
CTCF_fibroblast of gingiva_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
MDAMB231	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.982653
marrow cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.065749
H3K4me3_retinal pigment epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE88819_5_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-WVLH-0006-SM-3MJF7	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.99558
SMAD4	Pathway Commons Protein-Protein Interactions	1.0	null
GSE139427_2_v_1_ibrutinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
SEPT11	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE151090_5_v_4_verteporfin_human	RummaGEO Drug Perturbation Signatures	1.0	null
binding	GO Molecular Function Annotations 2015	1.0	null
FLNB	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-S4Q7-0626-SM-4AD5M	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06862
ASAH1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-NFK9-0926-SM-2HMJU	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.837886
fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.065169
FLI1::FOXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.5644
SOX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.991
organelle lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.084099
hvps22p	GeneRIF Biological Term Annotations	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-HQ-A5ND-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TA-34-CK62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.18531
Micronuclei, Chromosome-Defective	CTD Gene-Disease Associations	1.0	1.04574
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
PMC5031867-mmc2.xlsx-RYTTCCTG_V_ETS2_B-PROBE_ETS2	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-V955-0726-SM-3GAFG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.881413
DYNC1H1	Pathway Commons Protein-Protein Interactions	1.0	null
IZ in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.15727
POLR2A_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Stat4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.3018
PD-70-VS77_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.357728
ZBTB6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8294
hypothalamus	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.857199
GTEX-OXRO-0011-R10A-SM-2I5EH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.76432
CDC42SE2	Pathway Commons Protein-Protein Interactions	1.0	null
GSE245407,GSE245412_0_v_1_smurf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
amygdaloid complex_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.31822
asthma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.188022
GTEX-PLZ5-1126-SM-3P613	GTEx Tissue Sample Gene Expression Profiles	1.0	0.903833
GTEX-XQ8I-0006-SM-4BOQ5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-3.57916
GATA1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KA-81-AG66_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.88152
FOS	ENCODE Transcription Factor Targets	1.0	null
Bounding membrane of organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.654
H3K27ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CUX1	ENCODE Transcription Factor Targets	1.0	null
structural molecule activity	GO Molecular Function Annotations 2015	1.0	null
Membrane coat	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.791
rostral division of OFCi (area 11)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.900345
GTEX-S4UY-0008-SM-3NM8H	GTEx Tissue Sample Gene Expression Profiles	1.0	1.61816
GTEX-QCQG-0626-SM-48U21	GTEx Tissue Sample Gene Expression Profiles	1.0	0.964607
EIF2S2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07128
OVKATE	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.79555
NR3C2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.7995
ZKSCAN1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SkeletalMuscle	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.42485
cerebellar cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.03681
JIMT-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.05121
17724462-TableS1	GeneSigDB Published Gene Signatures	1.0	null
GSE153871_5_v_3_cytarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CTCF_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE216538_1_v_4_mrs2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Cytoplasmic microtubule plus-end	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.786
PTPN1	Pathway Commons Protein-Protein Interactions	1.0	null
8729_TBCD_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.598554
ETV6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.9667
GTEX-XBED-0003-SM-47JWP	GTEx Tissue Sample Gene Expression Profiles	1.0	0.964034
AIRE_KO_GDS2274_245_mouse_Medullary thymic epithelial cells (with low CD80 expression)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
TE10_OESOPHAGUS	CCLE Cell Line Proteomics	1.0	3.04168
GTEX-WWYW-0426-SM-3NB31	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.90668
Membrane stack	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.511
9656_USP39_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.533444
H3K4me3_WERI-Rb-1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
TYK-NU.CP-R	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.57423
Perturb_11641_KD_KCNA5_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.21531
MCM2	Pathway Commons Protein-Protein Interactions	1.0	null
ARSD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.36293
choroid plexus of the fourth ventricle	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.21235
IRF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
first	GeneRIF Biological Term Annotations	1.0	null
GTEX-QDT8-0011-R11A-SM-32PKD	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.880544
ARL8A	Pathway Commons Protein-Protein Interactions	1.0	null
11152_NON-TARGETING_NON-TARGETING	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.723741
WDR12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18842
H3K9ac_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ABI1	Pathway Commons Protein-Protein Interactions	1.0	null
PPARG-19300518-3T3-L1 preadipocyte cells-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-X4XX-0011-R8B-SM-46MWM	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.837591
posterior (caudal) superior temporal cortex (area 22c)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.0669
CALU-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.23896
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A7AW-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CA-66-YB17_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.300443
transient Purkinje cell clusters	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.9876
Sarcoma_SARC_TCGA-QQ-A5VC-01A-31R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
THAP11-20581084-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.407919
vitamin c_homo sapiens_gpl570_gds3635	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.850879
CTCF_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A7AY-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_Panc1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-TMMY-0426-SM-33HBB	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.63909
Head and Neck squamous cell carcinoma_HNSC_TCGA-KU-A6H7-06A-21R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CAL 54	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.894298
MYH9	Pathway Commons Protein-Protein Interactions	1.0	null
EPHA2	Pathway Commons Protein-Protein Interactions	1.0	null
basal ventral medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.4273
EPS8L3	Pathway Commons Protein-Protein Interactions	1.0	null
Rat-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.514
GSE166944_0_v_2_eif4b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AKT1_knockout_213_GSE39699	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.74031
H3K4me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
REST_SK-N-SH_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE126463_4_v_2_pomalidomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
ETF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05292
TAF1_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CEBPB_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
larva	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.811891
SCC-9	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.51717
GSE142210_2_v_6_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.23661
GSE216043_7_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	GO Biological Process Annotations 2023	1.0	null
Brain disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.424
dentate (lateral) nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.894695
HCFC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.453
MYC_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EXOC2	Pathway Commons Protein-Protein Interactions	1.0	null
PMC6080909-JEM_20171312_TableS1.xlsx-miR-196_predicted-Table_S1_miR-196a_b_predicted_targets_by_PITA_PicTar_TargetScan_and_DIANA_prediction_algorithms_ZFP1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC7304190-13229_2020_355_MOESM18_ESM.xlsx-Supplemental_Table_5-iPSC_NPCs_TCF4_TCF4	Rummagene Transcription Factor Associations 2026	1.0	null
PMC6932815-ppat.1007634.s015.xlsx-ST5_DGE_ELF1-R8AvIFN48-mock_lfc-ensembl_gene_id_ELF1	Rummagene Transcription Factor Associations 2026	1.0	null
regulation of biological process	GO Biological Process Annotations 2015	1.0	null
Inflammation	CTD Gene-Disease Associations	1.0	1.03641
bronchial epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.76157
EXOC4	Pathway Commons Protein-Protein Interactions	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A65B-01A-12R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.30839
CDC5L	Pathway Commons Protein-Protein Interactions	1.0	null
Filament	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.059
RAB9A	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CDX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.7187
GTF2H4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1674
GTEX-RNOR-0005-SM-2TF4Z	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.998008
Acute Myeloid Leukemia_LAML_TCGA-AB-2952-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE196962_4_v_3_parg_human	RummaGEO Gene Perturbation Signatures	1.0	null
IPCEF1	Pathway Commons Protein-Protein Interactions	1.0	null
ANKRD11	Pathway Commons Protein-Protein Interactions	1.0	null
GSE199660_1_v_3_secretin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
CF-24-KQ98_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.296436
POLR2A_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETS1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-N5-A4RV-01A-21R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
organelle assembly	GO Biological Process Annotations 2025	1.0	null
RABL2A	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
rectum	HPA Tissue Gene Expression Profiles	1.0	1.25235
GTEX-QMR6-0011-R4A-SM-32PKU	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.49036
H3K79me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_cardiac mesoderm_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ETV5::HOXA2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.0174
PMC5859872__F3	PFOCR Pathway Figure Associations 2024	1.0	null
POU5F1-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
ZNF384	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	115.19
GTEX-PVOW-0726-SM-2XCF5	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.09254
GTEX-OOBK-1626-SM-2HMKG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06839
GSE114258_3_v_2_foxk1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
REST_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
VAMP8	Pathway Commons Protein-Protein Interactions	1.0	null
2793_EXOSC6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.970515
POLR2A_lung_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.54285
TBC1D4	Pathway Commons Protein-Protein Interactions	1.0	null
lateral habenular nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-3.19138
regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
GSE214505_0_v_1_akr1b1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Ovariole	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.762
GSE128333_2_v_0_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular non-membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
NSF	Pathway Commons Protein-Protein Interactions	1.0	null
raw-264.7 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.259254
GTEX-NL3G-0008-SM-4E3JX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.947809
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5697-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOXA2	ENCODE Transcription Factor Targets	1.0	null
CTCF_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELK1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RUFY1	Pathway Commons Protein-Protein Interactions	1.0	null
MXI1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FERMT1	Pathway Commons Protein-Protein Interactions	1.0	null
preoptic region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.12458
cervical adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.133091
organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
LIN7C	Pathway Commons Protein-Protein Interactions	1.0	null
primary visual cortex (striate cortex, area V1/17)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.74933
CA-42-YI34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.319485
CTCF_mammary epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular organelle	GO Cellular Component Annotations 2015	1.0	null
MOB1B	Pathway Commons Protein-Protein Interactions	1.0	null
Amebiasis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.001
SW 1990	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.00295
HNF4A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.479702
GSE196110_1_v_2_ndrg3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-4730-01A-01R-1436-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
III, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.13306
GSE201239_3_v_2_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
RELA_GM18505_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9443_TWISTNB_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.727513
H3K4me3_A549_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
endosomal part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.63301
eGFP-GATA2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Endosome	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Pancreatic adenocarcinoma_PAAD_TCGA-3A-A9I5-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC4909989-ncomms11840-s3.xlsx-Sheet1-The_overlapped_genes_regulated_by_YAP_YAP_TEAD4-FL_YAP_TEAD4-S_and_YAP_RBM4_TEAD4	Rummagene Transcription Factor Associations 2026	1.0	null
reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A45Q-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
increased total body fat amount	IMPC Knockout Mouse Phenotypes	1.0	null
rostral (anterior) extramural migratory stream	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.9683
PMC8238961-41467_2021_23899_MOESM5_ESM.xlsx-TG_MODEL3_AA-UCSC_RefGene_Name_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE154081_3_v_0_sildenafil_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
VPS11	Pathway Commons Protein-Protein Interactions	1.0	null
GSE128333_4_v_5_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE158834_10_v_8_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
escrt iii complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.64254
GTEX-W5WG-1626-SM-4LMKG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.26568
VPS37B	Pathway Commons Protein-Protein Interactions	1.0	null
Dlx5	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.0748
Perturb_421_KD_MYBL2_SRP239534	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.3814
H3K4me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SYK_druginhibition_281_GSE43510	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.06188
GTEX-RVPV-0011-R3A-SM-2TF63	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.875266
cerebellar vermis	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.973603
7454_RPL27A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	1.01624
HCC4017	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.11124
GTEX-WHPG-0006-SM-3NMBV	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17776
endocrine gland	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
GTEX-N7MS-0011-R4a-SM-2HMKW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.322
TJP1	Pathway Commons Protein-Protein Interactions	1.0	null
subgranular zone of caudal dentate gyrus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.42436
COLO 792	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0969
fallopiantube_8e	HPA Tissue Sample Gene Expression Profiles	1.0	1.23184
Lysosomal HOPS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.568
GTEX-X261-0011-R6B-SM-4E3J8	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.08816
H3K4me3_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Autolysosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.214
GSE72491_0_v_1_pcbp2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
extracellular region part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
inferior rostral gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.00627
Lung adenocarcinoma_LUAD_TCGA-73-7499-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
QB-88-PG52_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.276465
LAMP2	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-4747-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
GTEX-U4B1-1126-SM-4DXV3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.37541
BB-49-OQ60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.223313
GSE181003_3_v_2_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27ac_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_fibroblast of foreskin _hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IB-56-JN40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.724974
POU4F1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.8036
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.57199
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.8526
TEAD4-22529382-TROPHECTODERM-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
AU565	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65155
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.014
TMED1	Pathway Commons Protein-Protein Interactions	1.0	null
BIN1	Pathway Commons Protein-Protein Interactions	1.0	null
cellular_component	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.367388
POLR2A	ENCODE Transcription Factor Targets	1.0	null
EP300_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSK3B	Pathway Commons Protein-Protein Interactions	1.0	null
Vesicle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.751
H3K4me3_GM06990_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RPMI 2650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.930694
8426_SRRT_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.663075
intracellular	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
organelle	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
Cotton fibre	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.527
GTEX-R55F-1226-SM-2TF59	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.44683
PPP6C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07107
RAPGEF4	Pathway Commons Protein-Protein Interactions	1.0	null
PHF8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-VUSG-0003-SM-3NMDK	GTEx Tissue Sample Gene Expression Profiles	1.0	2.09211
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3451-01A-02R-1188-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2AphosphoS5_PFSK-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Neurosphere Cultured Cells Cortex Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
BT483	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.16916
A253	CCLE Cell Line Gene Expression Profiles	-1.0	-1.50019
PPP1CB	Pathway Commons Protein-Protein Interactions	1.0	null
vp8	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.648
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GNAI2	Pathway Commons Protein-Protein Interactions	1.0	null
posteroventral (inferior) parietal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.983129
TEC	Pathway Commons Protein-Protein Interactions	1.0	null
GSE151612_4_v_7_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H2AFZ_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RSF1	Pathway Commons Protein-Protein Interactions	1.0	null
macrophage	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.078674
TRIM28	Pathway Commons Protein-Protein Interactions	1.0	null
SP in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.34299
THAP1	ENCODE Transcription Factor Targets	1.0	null
GTEX-XMD1-0011-R9A-SM-4AT49	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.851637
PMC12254391-41598_2025_8960_MOESM5_ESM.xlsx-Suppl_Table_6_DEG-Supplemental_Table_6_Differentially_Expressed_Genes_DEG_between_siRNA_DLX4_and_siRNA_control_n_3_RA_FLS_cell_lines_per_treatment_group_DLX4	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-UJHI-0006-SM-3DB8H	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00724
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A1BQ-01C-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-S7SE-0011-R8A-SM-2XCDG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.924317
KB-46-EJ60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.37895
posteroventral (inferior) parietal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.900605
H3K4me3_LNCaP clone FGC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me2_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Foxo1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.4608
AP2A2	Pathway Commons Protein-Protein Interactions	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-VP-A872-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
tetraspanin-enriched microdomain	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.82
SYK	Pathway Commons Protein-Protein Interactions	1.0	null
NCI-H2135	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.916137
SNX2	Pathway Commons Protein-Protein Interactions	1.0	null
COPI-coated Golgi to ER transport vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.935
H3K4me3_epithelial cell of proximal tubule_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-S7PM-0011-R5A-SM-3NM8G	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.58261
SKLMS1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.49832
CBX3_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MVP	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-RU72-0011-R7A-SM-2TF5U	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.39645
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.936041
primary auditory cortex (core)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.29166
ARL15	Pathway Commons Protein-Protein Interactions	1.0	null
GSE236262_0_v_3_trim28_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
FOXC1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	47.4774
496100456_TCx_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.73649
9482_UBA52_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.530247
H3K4me3_fibroblast of lung_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
SRF_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE104508_2_v_1_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MLX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.553
WB-48-EF24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.878229
MYC_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of upper leg skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE229580_2_v_3_creb1_human	RummaGEO Gene Perturbation Signatures	1.0	null
MAZ	ENCODE Transcription Factor Targets	1.0	null
SUM 1315M02	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.59845
8288_SOX2_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.599598
RINT1	Pathway Commons Protein-Protein Interactions	1.0	null
SMC4	Pathway Commons Protein-Protein Interactions	1.0	null
BCL3_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A2LV-01A-11R-A18M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MYC_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
NELFA-20434984-ESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
CB-16-SY72_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.63146
SP4_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIGMAR1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE240386,GSE242143_1_v_6_morc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Hair follicle	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GTEX-WOFL-0006-SM-3TW8K	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.14674
HAX1	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-QH-A65X-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hyperplasia	CTD Gene-Disease Associations	1.0	1.25838
GSE162015_2_v_0_nfkb1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-NL4W-0011-R9a-SM-2I3G1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.834317
IC-05-AW29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.240113
UACC-812 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.799
Lung squamous cell carcinoma_LUSC_TCGA-37-4130-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Recycling endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.408
CLCN7	Pathway Commons Protein-Protein Interactions	1.0	null
GLYR1	Pathway Commons Protein-Protein Interactions	1.0	null
brain stem	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PPP3CB	Pathway Commons Protein-Protein Interactions	1.0	null
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.92662
FB-66-UU47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.649388
escrtiii	GeneRIF Biological Term Annotations	1.0	null
DA-20-VR86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.304497
EGR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-SIU7-0001-SM-3NMAW	GTEx Tissue Sample Gene Expression Profiles	1.0	1.4748
H3K4me3_retinal pigment epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-QVUS-0626-SM-447CC	GTEx Tissue Sample Gene Expression Profiles	1.0	1.14301
H3K4me3_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNX5	Pathway Commons Protein-Protein Interactions	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-18-3412-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ventricular (matrix) zone of cerebellum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.86638
SIN3A_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AA-48-XT80_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.583704
AP2B1	Pathway Commons Protein-Protein Interactions	1.0	null
NR2F2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WDFY3	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_GM12878_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_H54_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_bronchial epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MYC_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4278335__F4	PFOCR Pathway Figure Associations 2023	1.0	null
GSE125014_1_v_5_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
TM9SF1	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-F9-A7VF-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Viral Infection Pathways	Reactome Pathways 2024	1.0	null
primary visual cortex (striate cortex, area V1/17)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.921142
connective tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054861
KA-75-LP02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.54017
GTEX-UPIC-1126-SM-4IHLO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.83909
negative regulation of epidermal growth factor receptor signaling pathway	GO Biological Process Annotations 2025	1.0	null
Endomembrane system	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GSE153867_6_v_8_olaparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE184902_4_v_1_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE227698_5_v_0_g0s2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
8040_SLC35A4_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.686676
H3K4me3_cardiac mesoderm_hg19_8	ENCODE Histone Modification Site Profiles	1.0	null
FLI1	ChEA Transcription Factor Targets	1.0	null
GSE154074_2_v_0_bleomycin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MTA3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188814,GSE188854_0_v_1_wtap_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ATF2_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18021
GSE104508_2_v_3_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SNPH	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ADAM10	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SK-MEL-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.40675
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.1774
Lef1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.346
PMC3121741-pgen.1002097.s010.xls-Table_S8-Table_S8_Intersection_between_IRF8_target_lists_from_Ref_31_and_those_from_the_present_study_IRF8	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-SSA3-0008-SM-47JWJ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.96249
lung	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.230931
PMC5651844-41467_2017_1173_MOESM7_ESM.xlsx-ZZZ3_ChIP-seq_peaks-Unnamed_6_ZZZ3	Rummagene Transcription Factor Associations 2026	1.0	null
NKIRAS2	Pathway Commons Protein-Protein Interactions	1.0	null
pancreas	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.989712
TRIM28_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNX6	Pathway Commons Protein-Protein Interactions	1.0	null
H3K36me3_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5888_NUP155_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.56223
ACTN4	Pathway Commons Protein-Protein Interactions	1.0	null
ANXA4	Pathway Commons Protein-Protein Interactions	1.0	null
RAB20	Pathway Commons Protein-Protein Interactions	1.0	null
AB-85-JR73_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.748042
GTEX-P4PP-1526-SM-3P61M	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01954
made	GeneRIF Biological Term Annotations	1.0	null
CTCF_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC3964217-oncotarget-05-417-s001.xls-Supplemental_Table_3-GABPA_high-signal_selected_bound_promoters_GABPA	Rummagene Transcription Factor Associations 2026	1.0	null
GOSR1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-NL3H-0011-R4a-SM-2I3GK	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.5265
VAC14	Pathway Commons Protein-Protein Interactions	1.0	null
GTF2F1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_brain microvascular endothelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TBL1XR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAB1A	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_HCT116_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE103122_0_v_1_puromycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
YY1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular organelle part	GO Cellular Component Annotations 2015	1.0	null
TCF12_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
BC-11-LL59_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205499
GTEX-OOBK-0005-SM-2YUMG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.982242
Prefoldin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.843
VPS45	Pathway Commons Protein-Protein Interactions	1.0	null
H3K27ac_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
REST_PFSK-1_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-SNOS-0006-SM-32PLH	GTEx Tissue Sample Gene Expression Profiles	1.0	0.880471
H3K4me1_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BD-69-GX17_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.943707
LD-69-ZV56_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.236609
FASTKD3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19984
RT4	COSMIC Cell Line Gene Mutation Profiles	1.0	null
STK38	Pathway Commons Protein-Protein Interactions	1.0	null
REST_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PWO3-0011-R1A-SM-2I5EW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.43872
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.0123
ZW10	Pathway Commons Protein-Protein Interactions	1.0	null
GSE217363_5_v_1_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CSNK2A2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0439
Perturb_13856_KD_CDC27_ERP133806	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.76766
GTEX-VJYA-0001-SM-3NMDJ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.79275
FOXP2	ENCODE Transcription Factor Targets	1.0	null
PMC9794594-DataSheet_1.xlsx-ST12-Unnamed_1_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
SU-DHL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30456
GSE86507,GSE86509_7_v_2_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-5365-01A-01R-1436-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SIN3A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IM-95M	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
OE-75-WF43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.412702
Endosome membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
GTEX-XOTO-0011-R8A-SM-4B65J	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.1203
AC-36-TL21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.294011
GTEX-QLQW-0426-SM-447A7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.10919
TRIM28-19339689-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-S7SF-0008-SM-3NM8T	GTEx Tissue Sample Gene Expression Profiles	1.0	1.28626
MEK_INHIBITION_GDS5029_278_human_SW480 KRAS-mutant colorectal cancer cell line - 4hours	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
ELF1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5457-11A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RUNX3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ANXA7	Pathway Commons Protein-Protein Interactions	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.484766
EP300_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HD-51-KD29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.15065
superficial layers of caudal presubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.37394
H3K27ac_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
excretory gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057892
extracellular region part	GO Cellular Component Annotations 2015	1.0	null
late endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	1.12501
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
TAF1_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-627	TargetScan Predicted Conserved microRNA Targets	1.0	0.766596
hela cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.40366
lung epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.439507
GTEX-SN8G-0008-SM-4DM4X	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00548
6868_PSMD14_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.553691
BC-25-VR48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.90198
H3K4me3_endothelial cell of umbilical vein_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE196505,GSE196507_1_v_2_kdm2b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ERF::FOXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.4026
SF295	CCLE Cell Line Gene CNV Profiles	1.0	1.37947
H3K79me2_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
AP1S1	Pathway Commons Protein-Protein Interactions	1.0	null
FF-86-NH56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.512241
COV362	CCLE Cell Line Gene Expression Profiles	-1.0	-2.2637
HC-92-HE59_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.42007
CTCF_GM12874_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PDCD4	Pathway Commons Protein-Protein Interactions	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-6220-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_513_KD_RUNX3_SRP201921	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
cytoplasmic vesicle membrane	GO Cellular Component Annotations 2023	1.0	null
H3K4me3_Jurkat_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42385
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A23K-01A-11R-A16R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ADRM1	Pathway Commons Protein-Protein Interactions	1.0	null
MAPK1_knockdown_112_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.71879
Skin Cutaneous Melanoma_SKCM_TCGA-DA-A1IA-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_11643_KD_KCNQ4_SRP113334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.92555
GSE165071,GSE165072_1_v_0_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
leukocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055087
localization	GO Biological Process Annotations 2015	1.0	null
H3K4me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MXI1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-K4-A5RI-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BD-90-DK64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.231638
MYC-19915707-AK7-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
TMOD3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.4065
GSE153871_1_v_2_cytarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-XLM4-0011-R9A-SM-4AT45	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.31629
rna metabolic process	GO Biological Process Annotations 2015	1.0	null
POLR2A_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ACADVL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.08222
membrane fission	GO Biological Process Annotations 2023	1.0	null
TAF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-QEG5-1426-SM-447AS	GTEx Tissue Sample Gene Expression Profiles	1.0	1.47894
JUND_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PML	ENCODE Transcription Factor Targets	1.0	null
AC-36-TL21_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.424717
GTEX-S7SF-0426-SM-3K2B7	GTEx Tissue Sample Gene Expression Profiles	1.0	0.908281
hsa-miR-1184	TargetScan Predicted Conserved microRNA Targets	1.0	0.219115
GSE148252_1_v_4_npas4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NELFE	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.94865
EB-67-WB79_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.359546
RAB1B	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_GM12865_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC2157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	0.924491
organic substance metabolic process	GO Biological Process Annotations 2015	1.0	null
CEBPB_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB-54-GQ68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-6.80892
USF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ASH2L-23239880-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
NR2F2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
THP-1	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.32628
parasolitary nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.35907
COLO 857	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.976027
GSE57871_5_v_9_vorinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MLXIPL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5852
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.837113
H3K4me3_B cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
NDNL2	Pathway Commons Protein-Protein Interactions	1.0	null
intracellular protein transport	GO Biological Process Annotations 2025	1.0	null
embryonic lethality prior to organogenesis	MGI Mouse Phenotype Associations 2023	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
hsa-miR-29b	TargetScan Predicted Conserved microRNA Targets	1.0	0.107229
Nephrocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.206
USP8	Pathway Commons Protein-Protein Interactions	1.0	null
anterodorsal nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.31218
JUN_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBC1D1	Pathway Commons Protein-Protein Interactions	1.0	null
intracellular transport	GO Biological Process Annotations 2015	1.0	null
6062_PAPOLA_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.652775
ELF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KC-A4BV-01A-31R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
cerebellar cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.54726
FLI1-26923725-CHIP-SEQ-HEMOGENIC-ENDOTHELIUM-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me1_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_endothelial cell of umbilical vein_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AP1G1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE142210_9_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12586162-41593_2025_2050_MOESM3_ESM.xlsx-Supplementary_Table_7-ELK4_unique_ELK4	Rummagene Transcription Factor Associations 2026	1.0	null
MDAMB453	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.24387
fibroblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.071761
GEO	COSMIC Cell Line Gene Mutation Profiles	1.0	null
vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.224913
GTEX-OHPK-1526-SM-3MJGM	GTEx Tissue Sample Gene Expression Profiles	1.0	0.825362
GSE110440_1_v_0_rad21_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SIX5_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Axonemal microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.916
TMEM14C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00104
4939_MED17_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.644007
KA-29-AB08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-4.90168
PMC8045971-Table_3.xlsx-vs_LPS_ctrl-Unnamed_4_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
GSE226249_0_v_7_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Nfe2l2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	21.6446
BD-69-XG81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.416633
endosome transport via multivesicular body sorting pathway	GO Biological Process Annotations 2015	1.0	null
CTCF_A549_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Encysting cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.592
KIFC1	Pathway Commons Protein-Protein Interactions	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 Microarray	-1.0	-0.88269
DMS 53	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	2.02156
GSE227592_9_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
524_ARMC7_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.651626
URGCP	Pathway Commons Protein-Protein Interactions	1.0	null
USF1_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MA-31-VM30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.361556
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.697
H3K4me3_SK-N-MC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KYM1	CCLE Cell Line Gene Expression Profiles	-1.0	-1.72795
CTCF_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endolysosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.159658
ATR	Pathway Commons Protein-Protein Interactions	1.0	null
A-673	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.31492
GTEX-XPVG-0526-SM-4B65N	GTEx Tissue Sample Gene Expression Profiles	1.0	1.15106
CIB1	Pathway Commons Protein-Protein Interactions	1.0	null
VPS18	Pathway Commons Protein-Protein Interactions	1.0	null
membrane part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.626057
HCC1419	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47633
CDC42	Pathway Commons Protein-Protein Interactions	1.0	null
dorsolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.01195
GTEX-VUSG-0726-SM-3GIK1	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.08941
blast cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.063066
helix	GeneRIF Biological Term Annotations	1.0	null
dorsal thalamus_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.9211
GTEX-W5WG-0008-SM-4KL25	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03516
RABEP1	Pathway Commons Protein-Protein Interactions	1.0	null
SNAPIN	Pathway Commons Protein-Protein Interactions	1.0	null
CD-05-PU90_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.78717
CTCF_kidney epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Epidermis	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Distal tip	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.05
urogenital system	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.23362
MAPK7	Pathway Commons Protein-Protein Interactions	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-4621-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HDAC1	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ANXA11	Pathway Commons Protein-Protein Interactions	1.0	null
hsa-miR-1279	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
VPS28	Pathway Commons Protein-Protein Interactions	1.0	null
TAF7L-23326641-C3H10T1-2-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
XPO7	Pathway Commons Protein-Protein Interactions	1.0	null
EC-82-LV30_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.334969
H3K4me3_GM12878_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE151090_0_v_4_verteporfin_human	RummaGEO Drug Perturbation Signatures	1.0	null
COG4	Pathway Commons Protein-Protein Interactions	1.0	null
SOX10	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.2097
HEP G2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06703
GSE241622_1_v_0_ythdc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Primary ciliary dyskinesia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.081
KLF1	ChEA Transcription Factor Targets	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-KT-A74X-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-US-A776-01A-13R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE200673,GSE200691_1_v_0_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF12_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-U8T8-0008-SM-4DXSP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05665
GSE169152_5_v_4_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
High grade glioma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.035
hsa-miR-4476	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
JUND_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Foxl2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	27.6384
PMC12749419-41598_2025_28826_MOESM3_ESM.xlsx-RFT_iBody3_hexaplicate-Genes_MBD1	Rummagene Transcription Factor Associations 2026	1.0	null
central medullary reticular group, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.13927
SRF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_H54_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE226285_3_v_0_glutathione_human	RummaGEO Drug Perturbation Signatures	-1.0	null
membrane-enclosed lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Bladder Urothelial Carcinoma_BLCA_TCGA-C4-A0EZ-01A-21R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE138841_0_v_1_trim6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Bach1::Mafk	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	46.2895
GAMG_CENTRAL_NERVOUS_SYSTEM	CCLE Cell Line Proteomics	1.0	2.77483
TAF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-NL3H-0006-SM-2I3FW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.74263
GSE149264,GSE149267_2_v_5_trp53_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TRAPPC3	Pathway Commons Protein-Protein Interactions	1.0	null
vacuolar transport	GO Biological Process Annotations 2015	1.0	null
GSTM3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59673
POLR2AphosphoS5_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.989184
GSE125025_2_v_3_lyl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
medial orbital gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.15942
UCHL3	Pathway Commons Protein-Protein Interactions	1.0	null
Cerebellum	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
DE-58-OW37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.20173
BHLHE40_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Endosome membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.963
CTCF_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventromedial hypothalamic nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.861776
increased cell proliferation	MGI Mouse Phenotype Associations 2023	1.0	null
protein homodimerization activity	GO Molecular Function Annotations 2025	1.0	null
MZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.13283
GSE126463_0_v_2_arid2_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE214823,GSE214824_5_v_1_crtc2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Molting gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.549
GSE158834_7_v_13_palm_human	RummaGEO Gene Perturbation Signatures	1.0	null
AC-35-CK01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.280895
H3K4me3_fibroblast of the aortic adventitia_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
TCF12	ENCODE Transcription Factor Targets	1.0	null
Larval integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.799
fallopiantube_8d	HPA Tissue Sample Gene Expression Profiles	1.0	1.79733
KIF1A	Pathway Commons Protein-Protein Interactions	1.0	null
POLR2A_cortical plate_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6345883-41598_2018_37397_MOESM10_ESM.xlsx-AR_D0_VS_D7_W_B29__TRANS-Gene_Name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
ARHGEF2	Pathway Commons Protein-Protein Interactions	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4135-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
IF-31-RN78_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.554145
cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.395098
AJM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.26153
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.09568
FOXJ2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.58805
SMC3_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAPK8	Pathway Commons Protein-Protein Interactions	1.0	null
GB-46-CK08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.597598
Retinal cone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.703
Pancreatic adenocarcinoma_PAAD_TCGA-OE-A75W-01A-12R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-46-6025-01A-11R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mediodorsal nucleus of thalamus_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.56548
TIA1_KO_GSE54418_262_mouse_liver	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
PPARG-20887899-3T3-L1 PREADIPOCYTE CELLS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
WT1	ChEA Transcription Factor Targets	1.0	null
FOS_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATF6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2999
JHOM2B	CCLE Cell Line Gene CNV Profiles	-1.0	-1.674
Implantation fossa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.618
PMC4944136-srep28995-s2.xls-DPRX-gene_DPRX	Rummagene Transcription Factor Associations 2026	1.0	null
Ventral nerve cord	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.208
phenotypic abnormality	GWASdb SNP-Phenotype Associations	1.0	0.028175
RANBP17	Pathway Commons Protein-Protein Interactions	1.0	null
LAMP1	Pathway Commons Protein-Protein Interactions	1.0	null
HOXB2::ELK1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5211
H3K4me3_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
Multivesicular body membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.616
NB14	COSMIC Cell Line Gene Mutation Profiles	1.0	null
CLPB	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_WI38_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
CACYBP	Pathway Commons Protein-Protein Interactions	1.0	null
Wing disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.13
valproic acid_homo sapiens_gpl6883_gse26940	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
H3K4me3_GM12865_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SNX4	Pathway Commons Protein-Protein Interactions	1.0	null
GABPA_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GRTP1	Pathway Commons Protein-Protein Interactions	1.0	null
HCFC1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
9686_UTP3_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.503985
H3K4me3_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CA-25-LR28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.419534
cellular_component	GO Cellular Component Annotations 2015	1.0	null
ZNF680	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.3694
GTEX-QLQ7-0926-SM-447BC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.858563
NCI-H650	COSMIC Cell Line Gene Mutation Profiles	1.0	null
SOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.9835
Lung squamous cell carcinoma_LUSC_TCGA-60-2724-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EGFR	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me1_CD4+ CD25- CD45RO+ Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
hematopoietic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052635
GTEX-QMR6-0011-R7A-SM-32PKL	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.39088
H3K4me2_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC9385264-NIHMS1828071-supplement-8.xlsx-ESR1-gene_symbol_ESR1	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
REST_PFSK-1_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MTF2	ChEA Transcription Factor Targets	1.0	null
GSE48812_2_v_1_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
8222_SNRNP70_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.559378
NCI-H345	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-0.917277
IC-28-HS37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.461844
AA-49-BD04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.201949
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-TEAD2_TEAD2	Rummagene Transcription Factor Associations 2026	1.0	null
fallopian tube	HPA Tissue Gene Expression Profiles	1.0	1.22355
CASK	Pathway Commons Protein-Protein Interactions	1.0	null
PMC12254391-41598_2025_8960_MOESM5_ESM.xlsx-fig-Supplemental_Table_6_Differentially_Expressed_Genes_DEG_between_siRNA_DLX4_and_siRNA_control_n_3_RA_FLS_cell_lines_per_treatment_group_DLX4	Rummagene Transcription Factor Associations 2026	1.0	null
POLR2A_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nr2f6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	52.9503
Sarcoma_SARC_TCGA-X6-A7W8-01A-21R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
layer VI of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.18286
ABR	Pathway Commons Protein-Protein Interactions	1.0	null
H3K23me2_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
primary visual cortex (striate cortex, area V1/17)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.936503
SIN3A_PFSK-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EXOC6	Pathway Commons Protein-Protein Interactions	1.0	null
PMC12749419-41598_2025_28826_MOESM3_ESM.xlsx-RFT_iBody3_triplicate-Genes_MBD1	Rummagene Transcription Factor Associations 2026	1.0	null
HCC1359	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.19017
GSE210662_3_v_1_znf165_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
YD-49-HM53_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-6.88097
MZ in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.879807
Frontotemporal dementia and/or amyotrophic lateral sclerosis 7	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.835
GALC	Pathway Commons Protein-Protein Interactions	1.0	null
hemorrhage	MGI Mouse Phenotype Associations 2023	1.0	null
HCFC1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE154074_2_v_4_bleomycin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
USF1	JASPAR Predicted Transcription Factor Targets	1.0	null
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.03
DD-65-SA37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-3.69059
H3K27ac_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A25Z-01A-11R-A16W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_GM06990_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
32_ABCE1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.623007
NAGLU	Pathway Commons Protein-Protein Interactions	1.0	null
Lysosomal lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.733
KLC4	Pathway Commons Protein-Protein Interactions	1.0	null
BE-79-QU25_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.458519
H3K4me3_Panc1_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-RVPU-0011-R3A-SM-2XCAE	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06091
DA-35-DU85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.372237
YY1_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SYNCRIP_OE_GDS3186_84_mouse_wild type 129 mouse retina	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
fetal growth retardation	MGI Mouse Phenotype Associations 2023	1.0	null
4463_KPNA6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	-1.0	-0.553274
GSE137702_2_v_1_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_GM10266_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
single-organism cellular localization	GO Biological Process Annotations 2015	1.0	null
PIK3C2B	Pathway Commons Protein-Protein Interactions	1.0	null
human immunodeficiency virus infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.172799
Hepatobiliary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.201
MOLM-13	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.90758
NFATC1	ENCODE Transcription Factor Targets	1.0	null
GSE227592_8_v_3_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
CTCF_GM12873_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular part	GO Cellular Component Annotations 2015	1.0	null
SEPT2	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-WWYW-0011-R8A-SM-3NB3S	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.999197
Axoneme	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.772
A549_Meprednisone_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0119037
E2F1-18555785-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
Imaginal disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.447
retrotransposon nucleocapsid	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.381969
IZ in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.71909
PANC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.19093
Brain Lower Grade Glioma_LGG_TCGA-FG-6692-01A-11R-1896-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cytoplasmic microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.087
ACTB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.3071
SIN3A	ENCODE Transcription Factor Targets	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.826927
CTCF_fibroblast of the aortic adventitia_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AF-99-HA02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-2.03459
POLR2A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ESCRT-II complex, vps25 subunit	InterPro Predicted Protein Domain Annotations	1.0	null
CHD7_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC12	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.15537
HIP1R	Pathway Commons Protein-Protein Interactions	1.0	null
2367_DPY30_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.544771
GSE126463_4_v_2_arid2_human	RummaGEO Gene Perturbation Signatures	1.0	null
endosome membrane	GO Cellular Component Annotations 2025	1.0	null
POLR2A_GM18505_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RHOT1	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_SK-N-SH_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-UY-A8OD-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
H3K4me3_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H920	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17065
DoTc2-4510	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.64826
LB2518-MEL	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.91067
GSE128333_4_v_0_tcf4_human	RummaGEO Gene Perturbation Signatures	1.0	null
SRF_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
retina	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.91287
TF-29-QU48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.370538
SMC3	ENCODE Transcription Factor Targets	1.0	null
CTCF_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of biosynthetic process	GO Biological Process Annotations 2015	1.0	null
required	GeneRIF Biological Term Annotations	1.0	null
MAPK13	Pathway Commons Protein-Protein Interactions	1.0	null
Ciliopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.319
polydactyly	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.886799
PMC8046804-41467_2021_22478_MOESM11_ESM.xlsx-Del_AA-TCGA-Unnamed_41_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_cardiac muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Sarcoma_SARC_TCGA-QC-A7B5-01A-11R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-Q2AG-1026-SM-33HBW	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.02085
H3K27ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE88819_3_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PBX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.2178
BA-84-WN26_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.212171
KDM5A	ENCODE Transcription Factor Targets	1.0	null
GTEX-QDVN-1626-SM-48TZC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.965386
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A6QZ-01A-12R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TAF7L-23326641-C3H10T1-2-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
SCHNEIDER-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.672
PMC6357748-aau9223_Table_S1.xlsx-CD4_T_-_LPS-Unnamed_0_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Fat body	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.726
RARA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	49.6494
GTEX-U8XE-0726-SM-3DB8O	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.42435
Bounding membrane of organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
hMPV_72Hour_18234263_GSE8961	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.44045
H3K4me1_CD8 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GTEX-WVLH-0011-R11A-SM-3MJFO	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.06784
GSE151782_6_v_5_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE86507,GSE86509_7_v_8_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BD-38-QC39_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.587739
H3K27ac_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2196	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-3.04562
Vacuolar lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.438
UHRF1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-WFJO-0008-SM-4LVN7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02584
TAF1	ENCODE Transcription Factor Targets	1.0	null
H2AFZ_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE188570,GSE188571_3_v_1_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE101112_6_v_4_j147_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
SPRY2	Pathway Commons Protein-Protein Interactions	1.0	null
urinary tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060734
Penis_Foreskin_Melanocyte_Primary_Cells_skin01	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	0.841963
JHH-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	1.0	1.60467
CPLX1	Pathway Commons Protein-Protein Interactions	1.0	null
SKBR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.82537
CTCF_fibroblast of villous mesenchyme_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE97278,GSE97280_2_v_1_nsd2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
paracentral lobule, posterior part, left, bank of cingulate sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.25801
CTCF_bronchial epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nucleoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
PMC9380317-13045_2022_1327_MOESM3_ESM.xlsx-Table_S7-Table_S7_Top_500_differentially_modified_gene_bodies_between_MM_and_its_precursors_in_AA_patients_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
FOXO3	ChEA Transcription Factor Targets	1.0	null
H3K4me1_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
macrophage cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.120064
regulation of primary metabolic process	GO Biological Process Annotations 2015	1.0	null
H3ac_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Nfatc1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	20.5595
subcuneiform nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.45795
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-5366-01A-01R-1436-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE89018_12_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE158834_1_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ATF1	ENCODE Transcription Factor Targets	1.0	null
Rectum adenocarcinoma_READ_TCGA-AH-6897-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5109-01A-02R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_GM15510_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
CEBPB	ENCODE Transcription Factor Targets	1.0	null
GTEX-N7MS-0011-R8a-SM-2YUMK	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.42747
GSE142210_9_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCFC1-20581084-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
YY1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HAP-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.525
MARK2	Pathway Commons Protein-Protein Interactions	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-DA-A1HV-06A-21R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mucocyst	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.528
A549	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46561
CTCF_keratinocyte_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SIRT6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
central nervous system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
TEAD4-22529382-TROPHECTODERM-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
DNMBP	Pathway Commons Protein-Protein Interactions	1.0	null
H3K9ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K27me3_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ELK4	ENCODE Transcription Factor Targets	1.0	null
adult testis	HPM Cell Type and Tissue Protein Expression Profiles	-1.0	-1.16529
SMC1-22415368-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
internal female genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056623
urogenital system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054756
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.0
VA-48-RJ44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.953874
skeletal muscle	HPA Tissue Gene Expression Profiles	-1.0	-1.5796
RAB14	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_JARID1A_20064375	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
colon_8b	HPA Tissue Sample Gene Expression Profiles	1.0	1.48728
EE-98-PF86_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.296201
organic substance biosynthetic process	GO Biological Process Annotations 2015	1.0	null
LA-86-XT29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.445725
H3K4me3_GM12865_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GABPA_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-NL3H-0011-R2a-SM-2I3GG	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.59115
BD-69-XG81_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.540377
inferolateral temporal cortex (area TEv, area 20)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.42621
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5084-01A-01R-1334-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GATA1	ChEA Transcription Factor Targets	1.0	null
SMC3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SRF_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
disease of mental health	GWASdb SNP-Disease Associations	1.0	0.042221
CTCF_skin fibroblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-X62O-1626-SM-46MW9	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.08755
Larva	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.099
A549_SRT3025 HCl_10nM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0170223
tretinoin_homo sapiens_gpl6244_gds4180	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-39-5036-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KF-18-RY71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.616914
GBA	Pathway Commons Protein-Protein Interactions	1.0	null
Late endosome membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.242
GTF2F1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BE-27-RQ61_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.887397
A673	CCLE Cell Line Gene CNV Profiles	-1.0	-1.9737
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.993017
PGAM5	Pathway Commons Protein-Protein Interactions	1.0	null
Perturb_3923_KD_VPS37B_SRP266781	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.42748
dorsolateral prefrontal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.12801
SIN3A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
kidney	GTEx Tissue Gene Expression Profiles	1.0	1.21356
IRF8	ChEA Transcription Factor Targets	1.0	null
ventrolateral prefrontal cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.896932
GTEx Heart 20-29 vs 60-69	GTEx Tissue-Specific Aging Signatures	-1.0	-8.87943
HCC2218	CCLE Cell Line Gene CNV Profiles	-1.0	-1.84993
CTCF_fibroblast of gingiva_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nucleus subceruleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.937104
HOXC9-25013753-NEUROBLASTOMA-BE2-C-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
hippocampus (hippocampal formation)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.99787
SRF_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-RY-A83Z-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
carcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053925
GSE98579_0_v_1_tfam_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of skin of abdomen_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
SCP2	Pathway Commons Protein-Protein Interactions	1.0	null
short snout	MGI Mouse Phenotype Associations 2023	1.0	null
SMC1A	Pathway Commons Protein-Protein Interactions	1.0	null
NCAPG	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-OXRN-0011-R5A-SM-2I5EF	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.1956
ZFP42-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
VRK1	Pathway Commons Protein-Protein Interactions	1.0	null
CFL1	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-RVPV-0006-SM-2TF6Q	GTEx Tissue Sample Gene Expression Profiles	-1.0	-2.63308
GTEX-RVPU-0011-R1A-SM-2XCAI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.89073
gata1_15860665_megakaryocytes_lof_mouse_gpl1261_gds1245	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.586733
GTEX-SNMC-0526-SM-4DM69	GTEx Tissue Sample Gene Expression Profiles	1.0	1.24533
colon_8a	HPA Tissue Sample Gene Expression Profiles	1.0	0.989563
GSE201239_3_v_4_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.147
GTEX-PWOO-0008-SM-48TDU	GTEx Tissue Sample Gene Expression Profiles	1.0	0.926489
DNAJC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.24412
JURKAT cell	ProteomicsDB Cell Type and Tissue Protein Expression Profiles	1.0	1.09395
epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.246442
Fatty Liver	CTD Gene-Disease Associations	1.0	1.05163
CAMA1	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.01452
cerebellar cortex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.87418
ARID3A	ENCODE Transcription Factor Targets	1.0	null
Intercellular bridge	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.492
USF1_A549_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-VUSH-0004-SM-3P61T	GTEx Tissue Sample Gene Expression Profiles	1.0	3.32211
DYNLRB1	Pathway Commons Protein-Protein Interactions	1.0	null
OE-31-YC41_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.627465
intracellular part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.438542
FA-36-VA24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-4.64818
CTCF_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of pedal digit skin_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
5493_NCBP1_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.35791
Pax7	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	20.0341
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E4-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JE-72-KV75_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.71338
HCC38	CCLE Cell Line Gene CNV Profiles	1.0	1.35541
Huntington's Disease_CNS - Brain - Striatum (MMHCC)_GSE9375	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.34053
GSE193993_4_v_3_sstr2_human	RummaGEO Gene Perturbation Signatures	1.0	null
BFTC-905	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.21393
cerebellar cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.14384
endosomal transport	GO Biological Process Annotations 2015	1.0	null
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
H3K4me2_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MAPKAPK2	Pathway Commons Protein-Protein Interactions	1.0	null
MAPK8IP3	Pathway Commons Protein-Protein Interactions	1.0	null
NFATC1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-U3ZG-0001-SM-47JYF	GTEx Tissue Sample Gene Expression Profiles	1.0	1.4593
PMC8355885-gutjnl-2020-320652supp004.xlsx-RALY_KD_mRNA-seq-Table_3_RALY_Knockdown_in_HCT116_cells_mRNA-seq_log2_FC_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.225917
H3K4me2_H1 BMP4 Derived Mesendoderm Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
BNIP1	Pathway Commons Protein-Protein Interactions	1.0	null
Heparanase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.726
ZNF578	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.80421
RELA_GM19099_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
K562	Roadmap Epigenomics Cell and Tissue Gene Expression Profiles	1.0	1.71705
CTCF_HeLa-S3_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BA-84-WN26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.29454
XRN2	ChEA Transcription Factor Targets	1.0	null
H3K4me3_foreskin fibroblast_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
VPS52	Pathway Commons Protein-Protein Interactions	1.0	null
CHD7	ENCODE Transcription Factor Targets	1.0	null
ZBTB18	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.66079
GTEX-XAJ8-1026-SM-47JY9	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.05141
EA-39-YN88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.441697
CD34+	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.906674
nucleus	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
NCIH2196	CCLE Cell Line Gene CNV Profiles	-1.0	-1.4317
ED-05-LQ40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.0349
Sarcoma_SARC_TCGA-JV-A5VF-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE158834_10_v_4_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ATP6V0D1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE158834_10_v_3_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ATG5	Pathway Commons Protein-Protein Interactions	1.0	null
GSE201270,GSE201272_5_v_1_mybl2_human	RummaGEO Gene Perturbation Signatures	1.0	null
late endosome to vacuole transport	GO Biological Process Annotations 2015	1.0	null
NCIH508	CCLE Cell Line Gene CNV Profiles	1.0	1.33361
STX16	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-TKQ1-0003-SM-3NMAE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.77125
GTEX-WRHU-0006-SM-3MJF6	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.931501
SIN3A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCoV-EMC2012_7Hour_23631916_GSE45042	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.29594
5494_NCBP2_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.1128
GSE178227_1_v_2_tet1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE163862_2_v_3_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
SHB	Pathway Commons Protein-Protein Interactions	1.0	null
Duchenne muscular dystrophy (DMD)_Muscle - Striated (Skeletal) (MMHCC)_GSE1025	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.54584
H3K4me3_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GBF1	Pathway Commons Protein-Protein Interactions	1.0	null
cellular component organization	GO Biological Process Annotations 2015	1.0	null
RCOR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endosome membrane	GO Cellular Component Annotations 2023	1.0	null
NCIH1105	CCLE Cell Line Gene Expression Profiles	-1.0	-1.67201
EGR1	ENCODE Transcription Factor Targets	1.0	null
MTF2-20144788-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAD21_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-29a	TargetScan Predicted Conserved microRNA Targets	1.0	0.127531
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.69717
NRBP1	Pathway Commons Protein-Protein Interactions	1.0	null
GSE157594_5_v_2_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
4932_MED12_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.583224
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.812
lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.045713
ZMIZ1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ARCN1	Pathway Commons Protein-Protein Interactions	1.0	null
Extracellular matrix organization and signaling modulation	CM4AI U2OS Cell Map Protein Localization Assemblies	1.0	null
MZ in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.2623
NCI-H740	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K4me3_Brain Cingulate Gyrus	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCC1143	CCLE Cell Line Gene Expression Profiles	-1.0	-1.48567
GOPC	Pathway Commons Protein-Protein Interactions	1.0	null
CALR	Pathway Commons Protein-Protein Interactions	1.0	null
XPO4	Pathway Commons Protein-Protein Interactions	1.0	null
SIN3A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF12_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFG7-1126-SM-4LMK3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.31498
Endosomal scaffold complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.07
GTEX-WWYW-1326-SM-3NB2S	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.6592
H3K4me3_iPS DF 6.9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GABPA_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XQ3S-0006-SM-4BOQ4	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.931058
GTEX-PLZ4-0926-SM-2S1OI	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.18526
SNX7	Pathway Commons Protein-Protein Interactions	1.0	null
HOOK2	Pathway Commons Protein-Protein Interactions	1.0	null
H3K4me3_cardiac mesoderm_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GOLIM4	Pathway Commons Protein-Protein Interactions	1.0	null
monocytic leukemia cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.134975
COV362	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32479
GSE163862_1_v_3_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE171837_0_v_2_bortezomib_human	RummaGEO Drug Perturbation Signatures	1.0	null
TXLNA	Pathway Commons Protein-Protein Interactions	1.0	null
CHMP1B	Pathway Commons Protein-Protein Interactions	1.0	null
PDX1-19855005-MIN6-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
mediodorsal nucleus of thalamus_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.925903
GSE201270,GSE201272_5_v_3_mybl2_human	RummaGEO Gene Perturbation Signatures	1.0	null
PFEIFFER	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21061
LC-12-VN85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.449468
GTEX-OIZG-0008-SM-4E3J2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.27716
FOXM1	ENCODE Transcription Factor Targets	1.0	null
OCT4-20526341-ESCS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
JD-81-YX02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.68209
CDK9_knockdown_104_GSE27869	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.73476
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E3-01A-21R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_GM18526_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4133-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PLEK2	Pathway Commons Protein-Protein Interactions	1.0	null
SNX13	Pathway Commons Protein-Protein Interactions	1.0	null
GTEX-UJHI-1126-SM-4IHLN	GTEx Tissue Sample Gene Expression Profiles	1.0	1.24711
POLR2AphosphoS5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RAB5C	Pathway Commons Protein-Protein Interactions	1.0	null
FOS_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1184	CCLE Cell Line Gene CNV Profiles	1.0	1.79609
H3K4me1_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-CU-A3YL-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_brain microvascular endothelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPM1D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.54674
BB-84-DG64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258188
Brain Lower Grade Glioma_LGG_TCGA-DU-6397-02A-12R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE138815,GSE138817_0_v_2_kdm6a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PTK2B	Pathway Commons Protein-Protein Interactions	1.0	null
BB-93-VT73_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.337601
GTEX-Q2AG-0011-R11A-SM-2HMKZ	GTEx Tissue Sample Gene Expression Profiles	-1.0	-0.835699
5493_NCBP1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.589034
SMC2	Pathway Commons Protein-Protein Interactions	1.0	null
BLOC1S1	Pathway Commons Protein-Protein Interactions	1.0	null
EXOC3	Pathway Commons Protein-Protein Interactions	1.0	null
UC-58-DM11_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.290658
Subpellicular microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.903
H3K36me3_keratinocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AR-27270436-VCAP-HUMAN-PROSTATE-CARCINOMA	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-UPIC-0002-SM-3NMDC	GTEx Tissue Sample Gene Expression Profiles	1.0	2.18145
USE1	Pathway Commons Protein-Protein Interactions	1.0	null
ARID3A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nuclear part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K4me3_WI38_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PITPNB	Pathway Commons Protein-Protein Interactions	1.0	null
COLO 679	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-1.02997
GSE217156_1_v_3_trpc1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NALM-6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles	-1.0	-2.14774
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.5193
Flotillin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.014
GTEX-SJXC-0426-SM-2XCFH	GTEx Tissue Sample Gene Expression Profiles	-1.0	-1.25516
ELF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RNF7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.76388
GTEX-RTLS-1126-SM-46MUQ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.929528