association	dataset	threshold value	standardized value
Rectum adenocarcinoma_READ_TCGA-DC-5337-01A-01R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-Q2AH-0826-SM-48TZN	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02906
Acute Myeloid Leukemia_LAML_TCGA-AB-2834-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
AA-22-UI44_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.491311
complete neonatal lethality	MPO Gene-Phenotype Associations	1.0	null
Perturb_4538_KO_Mtf2_SRP103933	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.62936
EHMT2_KD_GSE34925_693_human_MDA-MB231 cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
496100549_FWM_no dementia_TBI_87_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.76199
Neuron projection membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.959
Female reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Prospore contractile ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.893
Brain - Hippocampus	GTEx Tissue Gene Expression Profiles 2023	1.0	2.36538
Stat4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.9788
primary motor cortex (area M1, area 4)_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.29742
SK-CO15 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.588
Rheaume et al.Nat Commun.22_Retina_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
CAKI2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35952
DE-15-GD59_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.218694
HDLM-2	COSMIC Cell Line Gene CNV Profiles	-1.0	-5.12655
GSE210655_3_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EKVX	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.864972
496100367_FWM_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.45149
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.3442
H3K4me3_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TAF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cell-cell junction assembly	GO Biological Process Annotations 2015	1.0	null
embryonic stem no feeder	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.995543
Apical junction complex	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
mRNA_NR2F2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
colonic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.470375
Female reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.189
BHLHE40_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	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
TRPS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.4143
GSE122425_1_v_0_nsun2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE88819_11_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
apical plasma membrane	GO Cellular Component Annotations 2015	1.0	null
GSE125014_6_v_3_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-ICM_JUN-Unnamed_2_JUN	Rummagene Transcription Factor Associations 2026	1.0	null
GATA1_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
primary visual cortex (striate cortex, area V1/17)_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.00042
anterior (rostral) cingulate (medial prefrontal) cortex_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.838033
FLI1-21867929-CD8-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
OAW28	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70873
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A1EC-01A-21R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H920	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958605
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-S9-A7QZ-01A-12R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC8202205-NIHMS1706275-supplement-Table_S3.xlsx-Day_2_GATA6-dependent_genes-GATA6-dependent_mRNA_expression_Day_2_Mesendoderm_FDR_0_05_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
laterodorsal subdivision of area 8	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.00502
endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
heart_6a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
GSE231648_1_v_3_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205163,GSE205164_2_v_0_znf808_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MAFK	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.8229
CHD7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.251
Prostate adenocarcinoma_PRAD_TCGA-KK-A59X-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Vacuolar HOPS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.56
yy1_22711985_skeletal_muscle_lof_mouse_gpl8321_gse39009	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.339305
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-GS-A9TU-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
STAT3_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NELFE_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
OCI-LY-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16977
GSE169155_3_v_0_acetaminophen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
SNU216	DepMap CRISPR Gene Dependency	1.0	2.60671
Glomerular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.317
GTEX-Q2AH-1126-SM-48TZM	GTEx Tissue Sample Gene Expression Profiles	1.0	0.914091
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-6962-11A-01R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2A_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XQ8I-1526-SM-4BOOH	GTEx Tissue Sample Gene Expression Profiles	1.0	0.908319
Edinger-Westphal nucleus (accessory oculomotor nucleus)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.13667
Lung squamous cell carcinoma_LUSC_TCGA-66-2778-01A-02R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BAZ2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.66077
cerebellar cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.50061
ventrolateral prefrontal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.903333
ZBTB7A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE232631_0_v_2_brca2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-P5-A72Z-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ciliary vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.748
organism form	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.070042
Progesterone Receptor-Positive Breast Cancer	DisGeNET Gene-Disease Associations	1.0	null
COPS4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15546
Lung squamous cell carcinoma_LUSC_TCGA-22-1012-01A-01R-0692-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H2AFZ_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4130-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-4723-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
eye	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE149264,GSE149267_9_v_1_trp53_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CNNM4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.88842
Liver hepatocellular carcinoma_LIHC_TCGA-FV-A3I0-01A-11R-A22L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cystic kidney disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.744
interactors	GeneRIF Biological Term Annotations	1.0	null
striatum_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.37491
plant form	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057031
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4334-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	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 Microarray	-1.0	-0.88288
PMC3748736__F1	PFOCR Pathway Figure Associations 2023	1.0	null
POLR3A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.2642
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Zic1::Zic2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	28.4817
NCIH28	DepMap CRISPR Gene Dependency	1.0	5.20086
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE129244_3_v_1_lmo2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SREBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.4181
CB-16-SY72_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.958222
ASTE1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.46507
Renal glomerular capsule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.309
GSE151412_2_v_3_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
LF-94-HB11_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.272562
Pparg::Rxra	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	41.1194
AGS	CCLE Cell Line Gene Expression Profiles	1.0	1.46845
POLR2A_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mammary epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.461
PMC11067031-pnas.2317690121.sd03.xlsx-gene_list_-_2022-04-13T081711_1-Differentially_expressed_genes_between_PML_RARA_GFP_vs_Empty_vector_GFP_mouse_hematopoietic_cells_at_day_7_by_single_cell_RNA-seq_RARA	Rummagene Transcription Factor Associations 2026	1.0	null
MXI1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EIF3F	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15344
organelle	GO Cellular Component Annotations 2015	1.0	null
microtubule associated complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.097397
GSE228413_0_v_3_mavs_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
layer IIIu of area 35r	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.834417
ADAT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14312
Beemer-Langer syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.036
496100616_FWM_no dementia_TBI_84_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.3523
MYC-19030024-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_69_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
Hairy cell leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.341
Mesonephric duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.231
Cytoplasmic region	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.638
GSE147876,GSE147877_2_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
496100484_FWM_no dementia_no TBI_86_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.0408
TE-6	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-E5-A4U1-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE57871_11_v_9_vorinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
USF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	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
MYOG_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
central part of CEl	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.869028
NANOG-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Enamel knot	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.66
zonula adherens	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.541529
TBP_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC5977110__F2	PFOCR Pathway Figure Associations 2024	1.0	null
SIN3A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SPI1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE198380_0_v_1_phgdh_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Crus II, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.869865
GTEX-T5JC-1726-SM-4DM6U	GTEx Tissue Sample Gene Expression Profiles	1.0	0.897977
H3K27me3_Duodenum Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SAP30	ENCODE Transcription Factor Targets	1.0	null
Genital Diseases, Female	CTD Gene-Disease Associations	1.0	1.03122
Malignant Neoplasm	DisGeNET Gene-Disease Associations	1.0	null
complete preweaning lethality	MPO Gene-Phenotype Associations	1.0	null
H3K4me1_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
GSE111035,GSE111040_8_v_5_plag1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE239578_5_v_7_cxadr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
crb3	GeneRIF Biological Term Annotations	1.0	null
GTEX-PWCY-0726-SM-48TCS	GTEx Tissue Sample Gene Expression Profiles	1.0	0.832739
TP63	JASPAR Predicted Transcription Factor Targets	1.0	null
GTEX-U3ZM-0526-SM-4DXTB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.912838
POLR2A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RMGI	CCLE Cell Line Gene Expression Profiles	1.0	2.19689
cell part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.307749
TEAD-YAP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.872
intracellular part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040861
Terminal web	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.105
Pancreatic adenocarcinoma_PAAD_TCGA-2L-AAQL-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
LS180	CCLE Cell Line Gene Expression Profiles	1.0	1.37805
GSE213228_4_v_5_irak2_human	RummaGEO Gene Perturbation Signatures	1.0	null
KHM-1B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.996384
GSE112763,GSE112767_4_v_1_dgcr8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A1BK-01B-11R-A13Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27me3_Fetal Lung	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H2AFZ_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE125862_2_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
ovary	HPA Tissue Gene Expression Profiles	-1.0	-0.884866
KARPAS-620	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42335
hsa-miR-3151	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
H3K27me3_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
retinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.624535
PMC10243915-uxad037_suppl_supplementary_table_s1b-table_s3b.pdf-24-ZNF587_ZNF587	Rummagene Transcription Factor Associations 2026	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-2Z-A9J1-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PORCN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.54394
HNF1A-26855178-CACO2-HUMAN-COLON-ADENOCARCINOMA	ChEA Transcription Factor Targets 2022	1.0	null
GSE160373_8_v_2_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TBR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.1174
Retina	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K27me3_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC202	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.864972
GSE168473_0_v_1_isoniazid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Fatty Liver	CTD Gene-Disease Associations	1.0	1.08904
GSE102870_7_v_0_nr1h4_human	RummaGEO Gene Perturbation Signatures	1.0	null
HUH6	DepMap CRISPR Gene Dependency	1.0	11.2746
H3K4me3_cardiac mesoderm_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Polycystin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.551
Prenatal Exposure Delayed Effects	CTD Gene-Disease Associations	1.0	1.76269
Esophagus - Mucosa	GTEx Tissue Gene Expression Profiles 2023	1.0	1.14573
LMNA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.42559
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE169155_6_v_0_acetaminophen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12775252-18_2025_5991_MOESM3_ESM.xlsx-Sheet1-Supplementary_Table_2_Up-_and_down-regulated_genes_in_TCF7L2-depleted_EVT_compared_to_control_EVT_TCF7L2	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
gastrula	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.512171
PMC6145927-41467_2018_5729_MOESM6_ESM.xlsx-TF_Activity_Genesets-AIGNER_ZEB1_TARGETS_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
H3K27me3_CD14-positive monocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Axonemal microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.82
ZEB1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
alimentary canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.306444
KDM5B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
leukocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062589
colon	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.320956
tight junction	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
olfactory bulb	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.00074
H3K4me3_epithelial cell of esophagus_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BCPAP	CCLE Cell Line Gene Expression Profiles	-1.0	-1.78218
PRDM1	JASPAR Predicted Transcription Factor Targets	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A6B1-01A-12R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PROP1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.5277
medial geniculate complex, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.04725
amygdaloid complex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.853133
GATA2-20887958-HPC-7-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE203308_7_v_5_brf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
interactions	GeneRIF Biological Term Annotations	1.0	null
HCC1395	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.770583
H2AFZ_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE242083,GSE242098_3_v_1_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
macromolecular complex	GO Cellular Component Annotations 2015	1.0	null
GSE184902_4_v_0_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-RN64-1026-SM-48FDX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.857139
SDAD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.28705
cerebellar cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.26287
formation	GeneRIF Biological Term Annotations	1.0	null
paracentral lobule, posterior part, right, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.26594
isoform	GeneRIF Biological Term Annotations	1.0	null
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE200352_10_v_6_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.585
Cell-cell junction organization	Reactome Pathways 2024	1.0	null
spanning component of membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.345314
Lung squamous cell carcinoma_LUSC_TCGA-33-4587-11A-01R-2125-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
USF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fat_e	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
H3K4me3_bronchial epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TRNAU1AP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.62095
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-GS-A9TT-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.18095
GSE158815_5_v_3_trib1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
autosomal genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.046829
CTCF_MEL cell line_mm9_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
Gastrodermis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.917
Brush border	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.49
PMC11015551-12915_2024_1879_MOESM8_ESM.xlsx-depmap_predictability_data_REST-feature_REST	Rummagene Transcription Factor Associations 2026	1.0	null
VZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.34818
SP4_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_cardiac mesoderm_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A196-01A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CD34+	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.93798
SHOX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	13.656
H3K27me3_cardiac mesoderm_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
Endocytic patch	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.862
SPTSSA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.34034
estradiol_mus musculus_gpl4134_gse23072	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
fetal membrane	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079254
BBSome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.205
PMC12486367-Supplementary_Data2.pdf-426-FOXL1_FOXL1	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H929	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09543
H4K20me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE173873_2_v_11_stra8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE111247_11_v_5_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Reflex, Abnormal	CTD Gene-Disease Associations	1.0	1.28027
CTCF_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-50-5068-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
496100388_HIP_probable Alzheimer's disease_no TBI_87_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.68329
MYC_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFIL3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.916
MEG01	CCLE Cell Line Gene CNV Profiles	1.0	1.63166
medial subdivision of central nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.60235
Breast epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.616
iPS-18 Cells	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	-1.0	-1.42789
ZNF143_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mammillary body, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.1671
H3K27me3_cardiac mesoderm_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1650	CCLE Cell Line Gene CNV Profiles	-1.0	-2.22373
Presynaptic active zone membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.602
seedling	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059515
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.0434
CTCF_cortical plate_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100539_HIP_probable Alzheimer's disease_TBI_78_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.14665
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GC-04-UF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.19781
RL	CCLE Cell Line Gene CNV Profiles	-1.0	-1.85982
Lung adenocarcinoma_LUAD_TCGA-49-4510-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_GM12864_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PECAPJ49	CCLE Cell Line Gene Expression Profiles	1.0	1.39803
VIPR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18466
GSE127790_10_v_2_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.05702
posterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.24292
ABC1	DepMap CRISPR Gene Dependency	1.0	5.51286
membrane region	GO Cellular Component Annotations 2015	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-94-8491-01A-11R-2326-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC5501852__F6	PFOCR Pathway Figure Associations 2024	1.0	null
abnormal respiratory system morphology	MPO Gene-Phenotype Associations	1.0	null
abnormal respiratory conducting tube morphology	MGI Mouse Phenotype Associations 2023	1.0	null
Heart - Atrial Appendage	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.603533
PMC3426783__F4	PFOCR Pathway Figure Associations 2024	1.0	null
POLR2A_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE138841_0_v_1_trim6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
IZ in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.15176
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.693
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	0.884335
Brain Lower Grade Glioma_LGG_TCGA-DH-A669-02A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BC-54-ON71_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.293971
Lung adenocarcinoma_LUAD_TCGA-73-4675-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
amygdala	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.10425
GATA2-20887958-HPC-7-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC6748048__F3	PFOCR Pathway Figure Associations 2024	1.0	null
SH3 domain binding	GO Molecular Function Annotations 2025	1.0	null
Liver	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.981163
plasma membrane	GO Cellular Component Annotations 2015	1.0	null
ARID3A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE153662,GSE153664_1_v_0_zeb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ChIP_K27me3_17603471_mouseMEF	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
LMX1A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.2922
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A3HV-01A-11R-A21D-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
QE-79-XO29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.898933
GSE127790_6_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AA-99-HO76_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.217299
Tumor Cell Invasion	DisGeNET Gene-Phenotype Associations	1.0	null
GSE184892_7_v_2_trehalose_human	RummaGEO Drug Perturbation Signatures	1.0	null
Malpighian tubule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.649
PMC11947124-41419_2025_7562_MOESM1_ESM.docx-61-ENSG00000177045_SIX5	Rummagene Transcription Factor Associations 2026	1.0	null
Cortical actin cytoskeleton	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.575
vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
H3K4me2_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-S95S-0426-SM-4B64I	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01386
PMC4387713-supp_gad.255984.114_Table_S4.xlsx-S4A-Down_Nanog_KD-Unnamed_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.11533
MAX_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BT549	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.43013
t60-adrenal_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	1.54519
CCND1-20090754-RETINA-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
primary motor cortex (area M1, area 4)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.78926
inner ear	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.157958
GSE165122_2_v_1_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC2758293__F2	PFOCR Pathway Figure Associations 2023	1.0	null
GSE145215_0_v_3_krt13_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
membrane-bounded vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
GSE86507,GSE86509_4_v_8_hoxb7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE164757,GSE164759_1_v_2_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Stratified epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.116
H3K9ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
USF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Saccule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.666
GSE234514,GSE234516_2_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE116354,GSE117379_3_v_5_cox2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.20229
crumbs	GeneRIF Biological Term Annotations	1.0	null
GTEX-XUZC-1326-SM-4BRV2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.946633
GSE153836_14_v_5_fluoxetine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE144838_1_v_5_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DYNC1LI2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.17983
HPAFII	CCLE Cell Line Gene Expression Profiles	1.0	1.41407
ZXDC_KD_GDS5070_504_human_U937	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
NANOG	ChEA Transcription Factor Targets	1.0	null
GSE149901_2_v_0_anlotinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GATA1	ENCODE Transcription Factor Targets	1.0	null
Bardet-Biedl syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.317
GSE111035,GSE111040_8_v_9_plag1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
epidermis	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054547
NCIH1395	CCLE Cell Line Gene Expression Profiles	1.0	1.48214
GTEX-XV7Q-1126-SM-4BRVS	GTEx Tissue Sample Gene Expression Profiles	1.0	0.83445
SNU1076	CCLE Cell Line Gene CNV Profiles	-1.0	-1.57954
AD-16-HL96_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.12981
H3K36me3_keratinocyte_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBX18	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2321
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
OC314	DepMap CRISPR Gene Dependency	1.0	2.34934
GSE210580_3_v_2_rag2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE147662_0_v_1_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
central nucleus of inferior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.932262
YY1	MotifMap Predicted Transcription Factor Targets	1.0	null
Lateral part of cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.517
Learning Disorders	CTD Gene-Disease Associations	1.0	1.42535
Cdc42 GTPase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.866
GSE148262,GSE150691_1_v_0_hdlbp_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE172295_0_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-XQ3S-1526-SM-4BOOC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.834491
TMA16	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.22661
Inner medullary collecting duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.046
LIG3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27059
orbital frontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.28769
GSE88819_5_v_4_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_cardiac mesoderm_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XBED-1026-SM-48TCB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.853995
Bladder Urothelial Carcinoma_BLCA_TCGA-S5-A6DX-01A-11R-A31N-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 Microarray	1.0	1.13092
GSE153663,GSE153664_1_v_0_zeb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE236502_2_v_3_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
dorsolateral prefrontal cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.55044
Apical complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.62
CE-00-EK89_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.205686
Kidney renal papillary cell carcinoma_KIRP_TCGA-DW-7842-01A-11R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.82533
U-2932	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.26893
JUN	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TCF12_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
t69-brown-adipose_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	3.74257
TAF1	ENCODE Transcription Factor Targets	1.0	null
TMEM115	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61758
H3K4me3_GM06990_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
adrenalgland	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.36107
digestive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
cerebellar cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.96904
rosette	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.319863
CTV-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K4me1_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SNAPC4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34159
extracellular vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.03318
Epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.224
PRPF40A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.6098
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_68_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.506
GSE197257_0_v_1_gpd2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KIAA0319L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06409
HNF1B	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.0244
GSE178532_1_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
posteroventral (inferior) parietal cortex_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.0322
SOX2-27498859-CHIP-SEQ-STOMACH-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC6145927-41467_2018_5729_MOESM6_ESM.xlsx-TF_Activity_Genesets-Larsen_ZEB1_DN_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
largeintestine	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.23261
H3K4me1_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
dorsal thalamus_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.61927
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16977
Lung adenocarcinoma_LUAD_TCGA-69-8254-01A-11R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Leading edge membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.984
TCF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.9157
RHOC	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.92389
Lung non-small cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.14
TAL1_megakaryocyte_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Colon - Transverse	GTEx Tissue Gene Expression Profiles 2023	1.0	2.93982
GTEX-VUSG-2526-SM-4KL1V	GTEx Tissue Sample Gene Expression Profiles	1.0	0.903657
POLR2A_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_bronchial epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Tbx6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.2205
bonemarrow_6a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
H3K4me3_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
EP300_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreas disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.123
respiratory system phenotype	MPO Gene-Phenotype Associations	1.0	null
cortex	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.02075
MAX_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
superior rostral gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.03274
PMC12882559-12894_2026_2046_MOESM2_ESM.docx-0-ZNF770_ZNF770	Rummagene Transcription Factor Associations 2026	1.0	null
SET-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.21002
ERF::SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.6812
NAA30	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39218
Senior-Loken syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.164
Cell junction	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	1.0	1.532
female reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
HOXA5_01_305	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.88626
GSE184892_7_v_3_trehalose_human	RummaGEO Drug Perturbation Signatures	1.0	null
IV, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.01657
Spindle pole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.279
GATA2	ENCODE Transcription Factor Targets	1.0	null
planum polare, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.861369
junction	GeneRIF Biological Term Annotations	1.0	null
VZ in subcallosal region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.38772
Bladder Urothelial Carcinoma_BLCA_TCGA-YF-AA3L-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Collagen anchoring fibril	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.11
abnormal intestine morphology	MPO Gene-Phenotype Associations	1.0	null
identity	GeneRIF Biological Term Annotations	1.0	null
internal female genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052146
urogenital system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Coelomic fluid	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.54
POLR2A_HepG2_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
female reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056085
H3K36me3_bronchial epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC7825356-8844261.f3.docx-155-CREB3L3_CREB3L3	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Basal plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.501
MKN45	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32156
mRNA_NR5A2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
496100614_PCx_no dementia_TBI_84_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.11822
Blastomere	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.447
amygdaloid complex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.923012
CCD-841 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.689
GSE237040_6_v_1_notch3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-VUSG-2326-SM-4KL1U	GTEx Tissue Sample Gene Expression Profiles	1.0	0.898184
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
abnormal lung epithelium morphology	MPO Gene-Phenotype Associations	1.0	null
SG in granular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.26096
Retinitis pigmentosa 12	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.683
blood cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.06346
CRYBG2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00492
POMP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43479
WIDR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23298
ZEB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.1692
CHD7	ENCODE Transcription Factor Targets	1.0	null
GTEX-RWS6-0926-SM-47JXE	GTEx Tissue Sample Gene Expression Profiles	1.0	0.871576
VZ in midcingulate neocortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.30565
GFM2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06448
USF1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.380627
GC-04-UF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.923646
HCC78	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
lateral hypothalamic area, anterior region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.26323
GSE228727_2_v_1_dapagliflozin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CP in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.8825
RLN2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34476
KLM1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.50086
medial ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.927644
Neuroepithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.373
Kidney renal papillary cell carcinoma_KIRP_TCGA-G7-6789-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
16288205-GeneTable4	GeneSigDB Published Gene Signatures	1.0	null
GTEX-S4Q7-0626-SM-4AD5M	GTEx Tissue Sample Gene Expression Profiles	1.0	1.19764
Endocrine gland cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.237
sense organ	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
PMC8202205-NIHMS1706275-supplement-Table_S3.xlsx-Day_4_GATA6-dependent_genes-GATA6-dependent_mRNA_expression_Day_4_Definitive_Endoderm_FDR_0_05_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
olfactorybulb	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.913561
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
amygdaloid complex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.14346
H3K4me1_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC12616242-can-24-3452_supplementary_table_s2_suppst2.xlsx-Down_bins-Down_bins_loosing_H3K27me3_in_hpMSC-EWSR1_FLI1_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
CTCF_G1E-ER4_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_26 pcw_F_12949	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.913136
496100396_HIP_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.50405
L-363	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59965
Lung adenocarcinoma_LUAD_TCGA-49-4506-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
C16orf87	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22825
abnormal bronchiole morphology	MPO Gene-Phenotype Associations	1.0	null
RPAP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.86767
GSE232631_4_v_3_brca2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
abnormal kidney morphology	MPO Gene-Phenotype Associations	1.0	null
BF-79-GG96_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.227948
HCC2279	CCLE Cell Line Gene CNV Profiles	1.0	1.45531
Cyst	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.752
ferm	GeneRIF Biological Term Annotations	1.0	null
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12738
Rhabdomere	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.755
PMC10713402-aging-15-205220-s005.docx-0-RBAK_RBAK	Rummagene Transcription Factor Associations 2026	1.0	null
SG in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3486
Perturb_14112_OE_Pou2f3_SRP343255	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.48733
pancreas	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
COR-L279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.868417
GATA3	ENCODE Transcription Factor Targets	1.0	null
SCRT1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.1056
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_135_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
SARS-dORF6_72Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.43328
H3K27me3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-T6MO-0526-SM-4DM6R	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06643
GTEX-SNMC-0526-SM-4DM69	GTEx Tissue Sample Gene Expression Profiles	1.0	0.8754
Nephrocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.208
intrinsic component of membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.110019
Lung squamous cell carcinoma_LUSC_TCGA-66-2771-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-OXRP-0926-SM-48TC1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00471
GSE224763_1_v_0_rif1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
binding	GO Molecular Function Annotations 2015	1.0	null
Skeletal Muscle Male	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	1.0	1.19833
Urogenital system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
cerebellar cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.68774
GSE197555_1_v_2_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
FRAT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.48679
ChIP_NANOG_18692474	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
BBS10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.37855
cytoplasmic part	LOCATE Predicted Protein Localization Annotations	1.0	null
Carcinogenesis	DisGeNET Gene-Phenotype Associations	1.0	null
DUXA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.9456
USF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
subapical complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.767715
Semicircular canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.647
first	GeneRIF Biological Term Annotations	1.0	null
SARS-BatSRBD_0Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.96054
SLC25A33	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05673
Posterior cell cortex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.856
ACSS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01809
ELF1_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
crumbs3pals1	GeneRIF Biological Term Annotations	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-G7-6797-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.044722
Perturb_11912_KD_Arntl2_SRP063609	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	4.84855
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	-0.83048
Prostate adenocarcinoma_PRAD_TCGA-YJ-A8SW-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
fertilizedegg	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.66172
GTEX-VJYA-0726-SM-4KL1T	GTEx Tissue Sample Gene Expression Profiles	1.0	0.901749
SG in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3521
MYC-19030024-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
GSE158815_1_v_3_trib1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Uterine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.032
Bladder Urothelial Carcinoma_BLCA_TCGA-UY-A78O-01A-12R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hindgut	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.836
NCI-H1650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.1584
abnormal enterocyte morphology	MPO Gene-Phenotype Associations	1.0	null
GSE218819_3_v_4_kdm5b_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Rectum adenocarcinoma_READ_TCGA-AF-2691-11A-01R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
USF2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NUP58	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.07763
GFI1B-20887958-HPC-7-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
AD-16-HL96_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.864562
SUDHL5	CCLE Cell Line Gene CNV Profiles	1.0	2.55122
H3K4me3_kidney epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6ES-01A-12R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
integral component of membrane	GO Cellular Component Annotations 2015	1.0	null
VCAP	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33204
ARMCX6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.28655
GSE175787_11_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
TEAD4	ENCODE Transcription Factor Targets	1.0	null
POLR2A_cortical plate_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE122509,GSE122513_2_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
heart	GTEx Tissue Gene Expression Profiles	-1.0	-1.08087
A-Vietnam-1203_CIP048_RG3-2004(H5N1)mutPB1-F2del_0Hour_None_GSE43203	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.04147
GTEX-XUW1-0926-SM-4BONX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.852188
ovary	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE174586_0_v_1_slc4a11_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE205163,GSE205164_9_v_7_znf808_human	RummaGEO Gene Perturbation Signatures	1.0	null
DLD1	CCLE Cell Line Gene Expression Profiles	1.0	1.47386
Actomyosin contractile ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.762
GTEX-TML8-1326-SM-4DXTO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01993
GSE96641_3_v_4_esrp2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HCC38	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.60913
hsa-miR-3183	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
cell junction	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
CTCF_bone marrow_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
721_B_lymphoblasts	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.934176
sh3 domain binding	GO Molecular Function Annotations 2015	1.0	null
USF2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE120413,GSE120447_4_v_2_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Hydrocephalus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.297
intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.364513
posteroventral (inferior) parietal cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00906
POLR2A_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Breast Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
H3K4me3_Caco-2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE242096,GSE242098_1_v_0_med1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC3168773__F2	PFOCR Pathway Figure Associations 2023	1.0	null
GSE99187_1_v_0_gemcitabine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
extracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
USF1_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-MV-A51V-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6748048__F3	PFOCR Pathway Figure Associations 2023	1.0	null
SARS-CoV-2-host interactions	Reactome Pathways 2024	1.0	null
GSE237040_4_v_1_notch3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
USF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE174701_1_v_0_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.943893
Mesothelioma_MESO_TCGA-LK-A4O4-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Actin filament bundle of actin-based cell projection	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.603
Axonemal outer doublet	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.802
H3K4me3_MEL cell line_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
20081105-ST-1	GeneSigDB Published Gene Signatures	1.0	null
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SARS-CoV-2 Infection	Reactome Pathways 2024	1.0	null
TFEC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.8481
ELK1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF416	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.1884
SLITRK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.78026
CTCF_embryonic fibroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
APP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.52674
EXOSC4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.46175
SNAI2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.5211
mammalian phenotype	MPO Gene-Phenotype Associations	1.0	null
ELF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormal respiratory epithelium morphology	MPO Gene-Phenotype Associations	1.0	null
Pavement epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.294
H3K4me3_LNCaP clone FGC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BT474	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.601375
occipital pole, left, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.863662
Acute Myeloid Leukemia_LAML_TCGA-AB-2816-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
golgi apparatus	LOCATE Predicted Protein Localization Annotations	1.0	null
GATA2	JASPAR Predicted Transcription Factor Targets	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-6397-01A-11R-1708-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ChIP_K27me3_17603471_mouseNPC	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
15474998-tableS1c	GeneSigDB Published Gene Signatures	1.0	null
Autosomal dominant disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.244
H3K4me3_B cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
USF2	ENCODE Transcription Factor Targets	1.0	null
epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.759086
Abscission zone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.761
GA-88-CF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.647852
ZBTB12	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4223
H3K4me3_Panc1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
digestive/alimentary phenotype	MPO Gene-Phenotype Associations	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A44N-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DBF4B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.52203
HCFC1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TJP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04465
GSE149075_6_v_0_foxa2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.531
CAKI1	DepMap CRISPR Gene Dependency	1.0	4.37012
Lung squamous cell carcinoma_LUSC_TCGA-22-0944-01A-01R-0692-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
496100425_TCx_no dementia_TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.16607
CWC25	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04016
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A550-01A-61R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EK-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GV-A3JV-01A-11R-A220-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC5977110__F2	PFOCR Pathway Figure Associations 2023	1.0	null
Axolemma	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.976
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18463
dentate gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.10247
Bladder Urothelial Carcinoma_BLCA_TCGA-XF-A8HF-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ITM2B-related cerebral amyloid angiopathy 1	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.614
decreased small intestinal microvillus size	MPO Gene-Phenotype Associations	1.0	null
GTEX-N7MT-0326-SM-48TDP	GTEx Tissue Sample Gene Expression Profiles	1.0	0.91577
SMC3_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MKN74	CCLE Cell Line Gene Expression Profiles	1.0	2.61731
RCOR1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Morula	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.968
Kidney Chromophobe_KICH_TCGA-KN-8427-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
Rectum adenocarcinoma_READ_TCGA-EI-6883-01A-31R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
retinal degeneration	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.815104
COLO-704	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.3066
CE-18-AP15_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.247312
H3K27ac_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE218819_2_v_1_kdm5b_human	RummaGEO Gene Perturbation Signatures	1.0	null
preweaning lethality	MPO Gene-Phenotype Associations	1.0	null
LHX9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0836
E2F1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11023
Paranode region of axon	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.635
GSE111247_11_v_4_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MAX_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Panc1_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_cardiac mesoderm_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TGIF2LY	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.8498
Nr1h2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	17.3121
presenilin	GeneRIF Biological Term Annotations	1.0	null
cerebellar cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.09137
H3K4me1_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE88819_5_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
USF1	ENCODE Transcription Factor Targets	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.297
GSE107505_1_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_cardiac mesoderm_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ELF1_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5057
SUZ12-20075857-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE235516_0_v_1_zdhhc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
endoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.314772
GSE190681_1_v_0_rtcb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_5910_KD_GATAD2A_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GSE182180_1_v_2_secretin_human	RummaGEO Drug Perturbation Signatures	1.0	null
BHLHE40_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-CA-04-2009(H1N1)_0Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.43449
THRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.1538
ARMC10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12139
NCIH684	CCLE Cell Line Gene Expression Profiles	1.0	1.41329
protein localization to plasma membrane	GO Biological Process Annotations 2015	1.0	null
GSE217378_2_v_0_lin28b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.635167
HDAC6	ENCODE Transcription Factor Targets	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-N7-A59B-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SATB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0558
ESR2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.7816
mRNA_RXRA_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Whole body	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE146612_1_v_0_amiodarone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-XAJ8-0826-SM-47JY6	GTEx Tissue Sample Gene Expression Profiles	1.0	0.836079
GSE228413_2_v_1_mavs_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CHD2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
stomach_3b	HPA Tissue Sample Gene Expression Profiles	1.0	0.910558
Adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.309
protein localization to membrane	GO Biological Process Annotations 2015	1.0	null
GSE99687_0_v_1_smad5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Mo-B cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.371
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
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-6021-01A-11R-1686-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZEB1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE206516,GSE206518_6_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE222574_0_v_2_lmna_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FOS_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_12848_KO_Kdm4a_SRP192379	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.71037
17009876-tableS1a	GeneSigDB Published Gene Signatures	1.0	null
FOS_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NPRL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24331
GSE231648_1_v_5_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Mitotic spindle pole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.508
fundus dystrophy	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.724907
EZH2	ChEA Transcription Factor Targets	1.0	null
H3K27ac_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ELF1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC6335596-mmc2.xlsx-RNA-seq_Day_3_GATA6_Het-Genes_significantly_differentially_expressed_between_H9_and_GATA6_4ins_at_day_3_in_RNA-seq_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.29873
Polycystic kidney disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.57
colorectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.244545
mRNA_SOX9_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Germ	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.317
epidermal cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055645
SNU-182	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.3803
gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE146612_1_v_3_amiodarone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Hypertrophy	CTD Gene-Disease Associations	1.0	1.45063
Renal distal tubule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.075
POLR2A_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
protein localization to plasma membrane	GO Biological Process Annotations 2025	1.0	null
GSE150134_1_v_0_fluorouracil_human	RummaGEO Drug Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01731
H3K27me3_BJ_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BACH1	ENCODE Transcription Factor Targets	1.0	null
GTEX-PWN1-1426-SM-48TDF	GTEx Tissue Sample Gene Expression Profiles	1.0	0.882297
Pineoblastoma	DisGeNET Gene-Disease Associations	1.0	null
protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.041298
Larval ventral ganglion	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.738
MZ in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.30844
Ciliary base	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.87
POLR2A_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
crb2	GeneRIF Biological Term Annotations	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-4494-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE193258,GSE193259_9_v_14_osimertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
MIX23	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25484
H3K27ac_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC10016690-Table_3.xlsx-AKT1_vs_KLF4_deg_all-Unnamed_4_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
SMRT-27268052-CHIP-SEQ-BCELLS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
POU1F1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.4717
TAL1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE223893_2_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
respiratory system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.868417
GSE112765,GSE112767_1_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cell part	GO Cellular Component Annotations 2015	1.0	null
semicircular canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.857153
GSE206729_3_v_1_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
H3K27ac_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hematopoietic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.073592
EP300_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_iPS-15b	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE239844_11_v_5_crizotinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
abnormal nephron morphology	MPO Gene-Phenotype Associations	1.0	null
RAD21_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREB3L1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.9518
Brain Lower Grade Glioma_LGG_TCGA-DU-A7TB-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GRM	CCLE Cell Line Gene Expression Profiles	-1.0	-2.43953
Uterine disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.066
NCIH2347	CCLE Cell Line Gene Expression Profiles	1.0	1.8904
respiratory distress	MPO Gene-Phenotype Associations	1.0	null
SG in midlateral extrastriate cortex (area 19)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.5621
Ciliopathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.459
apical junction complex	GO Cellular Component Annotations 2025	1.0	null
USF2	JASPAR Predicted Transcription Factor Targets	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-US-A779-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.51943
PMC11392820-41556_2024_1475_MOESM3_ESM.xlsx-Supplementary_Table_9-Supplementary_Table_9_Expression_level_of_OTX2_targeted_genes_n_999_related_to_Figure_6_OTX2	Rummagene Transcription Factor Associations 2026	1.0	null
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.505
Apical junction complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.408
Perturb_1726_KO_Zeb1_SRP269619	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Perturb_5975_KD_TRA2A_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.24274
abnormal motile cilium morphology	MPO Gene-Phenotype Associations	1.0	null
respiratory distress	MGI Mouse Phenotype Associations 2023	1.0	null
C170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.26586
cell junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.697344
GSE118490_1_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
SNU1077	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49981
biological_process	GO Biological Process Annotations 2015	1.0	null
inner SZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.05744
Te	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.673
PAX5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.4752
HCC1806	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.773474
dynein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.132526
MYOD1_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
whole body	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
H3K4me2_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TCF12	ENCODE Transcription Factor Targets	1.0	null
large intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.266069
Perturb_4280_KO_Smchd1_SRP134966	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.66515
CTCF_cerebellum_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZEB1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE196110_1_v_2_ndrg3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE130690,GSE130692_2_v_0_sirt6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me2_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cortico-medial group, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.94332
GTF2F1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8234554__F2	PFOCR Pathway Figure Associations 2024	1.0	null
PMC5501852__F6	PFOCR Pathway Figure Associations 2023	1.0	null
MDAMB157	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.33757
Acute Myeloid Leukemia_LAML_TCGA-AB-2952-03B-01T-0760-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GATA1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XXEK-0326-SM-4BRVV	GTEx Tissue Sample Gene Expression Profiles	1.0	0.93734
primary somatosensory cortex (area S1, areas 3,1,2)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.64561
cellular component assembly	GO Biological Process Annotations 2015	1.0	null
GSE193258,GSE193259_9_v_15_osimertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
SYNCRIP_KD_GDS3578_86_human_MM1S	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
19036130-TableS1a	GeneSigDB Published Gene Signatures	1.0	null
cell part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
perinatal lethality	MPO Gene-Phenotype Associations	1.0	null
Sveinsson chorioretinal atrophy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.241
Perturb_4787_KD_Akap8_SRP075747	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-19.5229
cytoskeletal part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.047496
ELF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Chronic Lymphocytic Leukemia	DisGeNET Gene-Disease Associations	1.0	null
Perturb_3818_KO_Tnfrsf1a_SRP126581	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.31644
catalytic complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04418
H3K9ac_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE206093,GSE206094_1_v_3_isl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11214527-mmc5.xlsx-TP53-gene_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
cerebellar cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.34011
GSE192860_0_v_1_trifluoperazine_human	RummaGEO Drug Perturbation Signatures	1.0	null
MTMR11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00835
GSE127790_5_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12062214-41467_2025_59646_MOESM5_ESM.xlsx-HMGA2_activated_repressed-Ensembl_ID_HMGA2	Rummagene Transcription Factor Associations 2026	1.0	null
shoot	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05661
choroid plexus of the fourth ventricle	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.03176
GTEX-UJHI-1526-SM-3DB99	GTEx Tissue Sample Gene Expression Profiles	1.0	0.857639
Compact myelin	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.111
Acute Myeloid Leukemia_LAML_TCGA-AB-2895-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE125014_6_v_4_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H1651	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.932596
GSE178292_0_v_3_melphalan_human	RummaGEO Drug Perturbation Signatures	1.0	null
abnormal proximal convoluted tubule morphology	MPO Gene-Phenotype Associations	1.0	null
KLF4-18555785-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE160373_8_v_7_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Rectum adenocarcinoma_READ_TCGA-EI-7002-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3440-01A-02R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HUPT3	CCLE Cell Line Gene CNV Profiles	1.0	2.22469
known	GeneRIF Biological Term Annotations	1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_107_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
lateral intermediate part of entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.0883
DDR1_knockdown_169_GSE39207	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.1657
HUPT3	DepMap CRISPR Gene Dependency	1.0	4.52303
H3K4me3_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.06927
abnormal clara cell morphology	MPO Gene-Phenotype Associations	1.0	null
Cell type benign neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.243
GTEX-QDVN-1226-SM-48TZ5	GTEx Tissue Sample Gene Expression Profiles	1.0	0.83359
BE-79-QU25_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.407318
769P	DepMap CRISPR Gene Dependency	1.0	8.27228
A-CA-04-2009(H1N1)_48Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.74441
GSE206516,GSE206518_2_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE205630_0_v_1_gmds_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE136232,GSE136234_0_v_1_zpbp2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Ommatidium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.694
hsa-miR-335-5p	MiRTarBase microRNA Targets	1.0	null
yolk sac	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.368624
RV16_0Hour-B2B_None_GSE28904	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-1.64212
BACH1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_KLF4_19030024	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
PMC5313049__F9	PFOCR Pathway Figure Associations 2024	1.0	null
HCC1171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04614
CCND1	ChEA Transcription Factor Targets	1.0	null
H3K4me1_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
INADL	Pathway Commons Protein-Protein Interactions	1.0	null
CTCF_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_keratinocyte_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
striatum_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.36923
GTEX-OIZG-1026-SM-3LK5X	GTEx Tissue Sample Gene Expression Profiles	1.0	0.884036
GSE205976,GSE205978_3_v_0_cep83_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC5313049__F9	PFOCR Pathway Figure Associations 2023	1.0	null
protein localization to cell periphery	GO Biological Process Annotations 2023	1.0	null
GSE217405_3_v_2_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
related	GeneRIF Biological Term Annotations	1.0	null
single-organism membrane organization	GO Biological Process Annotations 2015	1.0	null
Ovarian surface epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.719
isoforms	GeneRIF Biological Term Annotations	1.0	null
GTEX-X585-2426-SM-46MW2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.11717
GTEX-XBEW-1326-SM-4AT63	GTEx Tissue Sample Gene Expression Profiles	1.0	0.862385
EP300_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUND	ENCODE Transcription Factor Targets	1.0	null
mortality/aging	MPO Gene-Phenotype Associations	1.0	null
H3K4me3_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HUCCT1	DepMap CRISPR Gene Dependency	1.0	6.54643
NCIH1915	CCLE Cell Line Gene CNV Profiles	1.0	1.38345
PMC3168773__F2	PFOCR Pathway Figure Associations 2024	1.0	null
C170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-JW-A852-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_1214_KO_Zfp580/Zbtb7a/Klf16_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	4.20727
GSE164757,GSE164759_1_v_0_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
ARID3A	ENCODE Transcription Factor Targets	1.0	null
GTEX-WI4N-1026-SM-3LK7N	GTEx Tissue Sample Gene Expression Profiles	1.0	0.901618
496100415_PCx_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.64038
MKN-45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73651
Female reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
intrinsic component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
abducens nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.906513
Basal cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.61
GSE139540_0_v_2_menadione_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE137144_4_v_0_nlrp3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
16651409-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
trachea	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE114284_1_v_5_irf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Pharyngeal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.859
hsa-miR-4323	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
POLR2A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cingulum bundle, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.999935
EE-03-SG02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.226016
GOLT1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24781
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
DYNC1I2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28519
uterine endometrium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.080413
TGIF2LX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.4457
PMC11947124-41419_2025_7562_MOESM1_ESM.docx-61-SIX5_SIX5	Rummagene Transcription Factor Associations 2026	1.0	null
GSE158715_2_v_4_cyp1b1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EA-18-FP00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.618564
Arnt	MotifMap Predicted Transcription Factor Targets	1.0	null
animal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE206729_3_v_0_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Ovarian follicular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.622
Perinuclear endoplasmic reticulum	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.544
membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
PMC3879300-pone.0084292.s002.xlsx-SPD_dataset-Gene_symbol_HOXD13	Rummagene Transcription Factor Associations 2026	1.0	null
H3K36me3_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Intercellular bridge	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.839
BC-54-ON71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.411208
CGR-8 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.79
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.507
MGE-Lateral region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.04434
tissues, cell types and enzyme sources	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
nephronophthisis-like nephropathy 1	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.064
superior parietal lobule, left, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.888776
Ovary	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
PD-70-VS77_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.958307
HSC-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.098
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A4NA-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TBX15	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.6797
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.179
GSE156115_2_v_1_igf2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
apical junction complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
PMC5259899-13287_2016_455_MOESM2_ESM.xlsx-Down-regulated-Supplementary_Table_S2_Down-reguated_genes_expression_in_MESP1_negative_cells_MESP1	Rummagene Transcription Factor Associations 2026	1.0	null
Lung adenocarcinoma_LUAD_TCGA-64-5781-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_mammary epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3187-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
GSE111247_14_v_5_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
membrane	GO Cellular Component Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AP-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
morula	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.610541
GTEX-U8XE-1726-SM-4E3IF	GTEx Tissue Sample Gene Expression Profiles	1.0	0.918995
hippocampus (hippocampal formation)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.52113
NCIN87	CCLE Cell Line Gene CNV Profiles	-1.0	-1.7577
outer CP in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.40209
SW1088	COSMIC Cell Line Gene Mutation Profiles	1.0	null
BC-33-BM51_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.30044
eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.531154
Ureteric bud	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.308
Disease	Reactome Pathways 2024	1.0	null
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.869623
USF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Adrenocortical carcinoma_ACC_TCGA-PK-A5H9-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE149355_0_v_1_esrp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_cardiac mesoderm_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE113329,GSE113335_3_v_4_taf6l_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MDCK cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	2.371
abnormal lung morphology	MGI Mouse Phenotype Associations 2023	1.0	null
BD-50-HU68_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.221461
GSE236454,GSE236456_0_v_1_angiotensin ii_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
NCIH524	CCLE Cell Line Gene Expression Profiles	-1.0	-1.81667
GSE65617_5_v_1_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HMEpC cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.449
GTEX-S341-0526-SM-4AD5U	GTEx Tissue Sample Gene Expression Profiles	1.0	0.945058
H3K4me3_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
rectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.162032
USF1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H446	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08556
Hemidesmosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.184
TARS3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07425
GSE193258,GSE193259_5_v_1_osimertinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ELF1	ENCODE Transcription Factor Targets	1.0	null
GTEX-S33H-0826-SM-4AD5Y	GTEx Tissue Sample Gene Expression Profiles	1.0	0.974706
H3K4me1_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
colonic cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.470763
H3K27me3_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RNF166	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.10033
MYC_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SMC3_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
2313287	CCLE Cell Line Gene Expression Profiles	1.0	1.4278
apical junction complex	GO Cellular Component Annotations 2023	1.0	null
leaf	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.061047
GTEX-XUJ4-2426-SM-4BOO3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.904954
Auditory vesicle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.084
UBA3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00711
abnormal pulmonary alveolus wall morphology	MPO Gene-Phenotype Associations	1.0	null
PMC6321280__F3	PFOCR Pathway Figure Associations 2023	1.0	null
layer III of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.39777
SARS-CoV Infections	Reactome Pathways 2024	1.0	null
AAMP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.84187
H3K9ac_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
R3HCC1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39114
CTCF_MEL cell line_mm9_5	ENCODE Transcription Factor Binding Site Profiles	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
colorectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.50275
CTCF_MEL cell line_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PRICKLE4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21248
Sarcoma_SARC_TCGA-DX-A7EO-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Neuroepithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.015
GTEX-OXRN-0126-SM-48TDM	GTEx Tissue Sample Gene Expression Profiles	1.0	0.947165
cellular process	GO Biological Process Annotations 2015	1.0	null
GSE87404,GSE87812_1_v_0_hoxa9_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
LC-12-VN85_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.258426
CD33+_Myeloid	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.999883
MAX_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Visceral endoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.621
GTEX-V1D1-1026-SM-4JBHE	GTEx Tissue Sample Gene Expression Profiles	1.0	0.869301
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SNU520	CCLE Cell Line Gene Expression Profiles	1.0	1.34947
cellular component organization or biogenesis	GO Biological Process Annotations 2015	1.0	null
ZNF384	ENCODE Transcription Factor Targets	1.0	null
Seminiferous epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.468
HCN4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11058
SLC16A8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.54107
SW-48 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.656
polarity	GeneRIF Biological Term Annotations	1.0	null
gigantocellular reticular nuclei	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.04044
GTEX-XK95-1026-SM-4GIDV	GTEx Tissue Sample Gene Expression Profiles	1.0	0.837656
head	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE127790_11_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Ciliary membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.529
H3K27ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ZNF213	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	73.278
ACKR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19822
PLEKHO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.01648
H3K4me3_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SP1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
zygote	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.408212
GSE147876,GSE147877_4_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cytoplasmic part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04199
GSE202434,GSE202438_9_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
TFAP4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	57.6144
Kidney renal papillary cell carcinoma_KIRP_TCGA-A4-7583-01A-11R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
VSX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.8258
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.3803
Desmosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.725
PMC6484770-41388_2018_602_MOESM5_ESM.xlsx-up_P53_vs_con-Unnamed_1_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
SEC31A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.3955
orbital frontal cortex_1 yrs_F_12830	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.95623
laminin-2 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.005
WC-16-IR43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.460719
Endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GSE232631_5_v_3_brca2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
YAPC	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31438
inferolateral temporal cortex (area TEv, area 20)_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.853133
GREB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.6392
MYC_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXA1	JASPAR Predicted Transcription Factor Targets	1.0	null
Breast carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.176
PMC10016690-Table_3.xlsx-AKT1_vs_KLF4_deg_all-Significant_DE_genes_in_AKT1_vs_KLF4_meningiomas_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
Photoreceptor cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.603
H3K4me3_kidney epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
apical plasma membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.943893
AA-15-HO31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238179
MCF7	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86496
H3K27ac_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
paraventricular nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.44407
NOTO	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3525
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.75494
BD-11-DV28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.21124
GSE155162,GSE155169_1_v_0_buparlisib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
OAW28	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.880123
GSE147876,GSE147877_4_v_5_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SUZ12-20075857-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
KCNK12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.70173
Liver hepatocellular carcinoma_LIHC_TCGA-ED-A82E-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-4503	TargetScan Predicted Conserved microRNA Targets	1.0	0.15008
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.56671
Bladder Urothelial Carcinoma_BLCA_TCGA-KQ-A41R-01A-21R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE48812_2_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE182179_5_v_4_kdsr_human	RummaGEO Gene Perturbation Signatures	1.0	null
HDAC6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WDR83	Pathway Commons Protein-Protein Interactions	1.0	null
FOS	ENCODE Transcription Factor Targets	1.0	null
GSE184902_4_v_1_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
VZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.91443
NCI-H146	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.932596
HUPT4	DepMap CRISPR Gene Dependency	1.0	2.87231
TBP_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NMuMg cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.171
ZNF524	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.1941
GTEX-X4XY-1726-SM-46MVO	GTEx Tissue Sample Gene Expression Profiles	1.0	1.382
Nephronophthisis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.492
Catenin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.452
cerebellum_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.27363
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QT-A5XJ-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-R3RS-1326-SM-48FE7	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830964
skeletalmuscle_b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
Artery - Coronary	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.603533
GSE193282_2_v_0_cd44_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
9+2 non-motile cilium	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.707
GSE154253_1_v_0_tnfaip8_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Leber congenital amaurosis 8	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.783
protein complex	GO Cellular Component Annotations 2015	1.0	null
MTCL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.07787
MAZ	ENCODE Transcription Factor Targets	1.0	null
GTEX-R55G-1026-SM-48FDI	GTEx Tissue Sample Gene Expression Profiles	1.0	0.966749
Bicellular tight junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.809
frontal pole, left, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.92713
H3K4me1_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Colorectal adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.917
GSE133691_2_v_0_lgr5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MPP5	Pathway Commons Protein-Protein Interactions	1.0	null
Brain - Cerebellar Hemisphere	GTEx Tissue Gene Expression Profiles 2023	1.0	2.63077
hsa-miR-4766-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.336728
Adenocarcinoma	DisGeNET Gene-Disease Associations	1.0	null
CHD2	ENCODE Transcription Factor Targets	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-3783-01A-01R-1201-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Wing disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.389
ATF3_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF770	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	79.9177
GSE217115_2_v_5_alectinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
membrane region	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.006199
USF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
apical complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.774101
H3K27ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A46F-01A-31R-A250-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC8185471-mmc4.xlsx-D4-DEGs_between_SOX15_KO_DPs_and_WT_DPs_cells_at_day_4_padj_0_05_Log2FoldChange_0_5_SOX15_KO_WT_or_Log2FoldChange_-0_5_SOX15_KO_WT_SOX15	Rummagene Transcription Factor Associations 2026	1.0	null
GATA1	ChEA Transcription Factor Targets	1.0	null
BCOR-27268052-CHIP-SEQ-BCELLS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
PMC9692040-mmc1.xlsx-2_CRAPOME_FILTERED_SAFB-T_Gene_names_SAFB	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE232218_1_v_0_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Progesterone Receptor-Negative Breast Cancer	DisGeNET Gene-Disease Associations	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A25T-01A-11R-A16W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HPN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.53791
MYOG	ENCODE Transcription Factor Targets	1.0	null
QF-71-QI30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.323885
smoothmuscle_8b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
Apical part of cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.62
H3K4me3_retinal pigment epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
choroid plexus of the lateral ventricle	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.00955
primary visual cortex (striate cortex, area V1/17)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.35968
Apical ectoplasmic specialization	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.78
GATA2_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE171269_1_v_4_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MDA-MB-330	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.932596
ZXDC1_KD_GSE45417_686_human_U937	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GFI1B-20887958-HPC-7-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
MAX_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
substantianigra	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.24318
Oestrogen Receptor Positive Breast Cancer	DisGeNET Gene-Disease Associations	1.0	null
GSE174406_2_v_1_lin28b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SNU-475	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02346
GA-88-CF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.06694
Rectum adenocarcinoma_READ_TCGA-DC-6155-01A-11R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cardiac mesoderm_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Anchoring junction	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
IX, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.40593
facial motor nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.01325
SARS-BatSRBD_72Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.8117
Actin cortical patch	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.873
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100458_FWM_no dementia_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.62786
H3K27me3_Brain Anterior Caudate	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
gastrointestinal tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.322779
molecular_function	GO Molecular Function Annotations 2015	1.0	null
H3K4me3_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC8185471-mmc4.xlsx-D2-DEGs_between_SOX15_KO_DPs_and_WT_DPs_cells_at_day_2_padj_0_05_Log2FoldChange_0_5_SOX15_KO_WT_or_Log2FoldChange_-0_5_SOX15_KO_WT_SOX15	Rummagene Transcription Factor Associations 2026	1.0	null
abnormal lung morphology	MPO Gene-Phenotype Associations	1.0	null
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09415
MYOD1	ENCODE Transcription Factor Targets	1.0	null
mRNA_PANCT1_22327834	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
H3K9ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE120413,GSE120447_3_v_2_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-O5YV-1026-SM-3LK72	GTEx Tissue Sample Gene Expression Profiles	1.0	0.921149
SARS-dORF6_0Hour_23935999_GSE47960	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.1311
MYC	ChEA Transcription Factor Targets	1.0	null
EA-18-FP00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.22211
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE211286_4_v_6_tcf12_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ECC2	DepMap CRISPR Gene Dependency	1.0	9.54823
posterior orbital gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.79656
MTHFD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68734
JUN_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
renal/urinary system phenotype	MPO Gene-Phenotype Associations	1.0	null
medial parabrachial nucleus,right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.918869
POLR2A_lung_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Visceral mass	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.825
Aster	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.892
Kidney disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.417
ELF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02158
PMC11938024-ADMA-37-2413413-s001.xlsx-Table_S1a_DE_Genes_analysis-Table_S1a_Differentailly_expressed_genes_Control_vs_NPs_treated_THP1_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
HDAC2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
USP39	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.44717
lateral habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.01475
GSE164757,GSE164759_4_v_2_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
FDX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07783
Acute Myeloid Leukemia_LAML_TCGA-AB-2935-03A-01T-0740-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE148692,GSE148695_2_v_6_satb2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Glucosidase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.872
H3K4me3_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
ZNF143	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.2924
GSE171572_3_v_4_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
Metanephron	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.522
cell periphery	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
plasma membrane part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.049815
18787207-TableS2	GeneSigDB Published Gene Signatures	1.0	null
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
mRNA_SMARCA4_22196727	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
specific developmental disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.048662
maturation	GeneRIF Biological Term Annotations	1.0	null
Infectious disease	Reactome Pathways 2024	1.0	null
cell-cell junction	GO Cellular Component Annotations 2023	1.0	null
WC-09-GD62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.13105
HC-74-HM63_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.42548
disease of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.041574
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-FOXA3_FOXA3	Rummagene Transcription Factor Associations 2026	1.0	null
MDAMB453	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.79143
RAB29	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.23085
TFEB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.6315
mRNA_SOX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE165122_2_v_3_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1_G1E-ER4_mm9_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tight junction assembly	GO Biological Process Annotations 2015	1.0	null
gyrus rectus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.856641
MYC_MCF-7_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PABIR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01847
subthalamic nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.831244
H3K4me3_mammary epithelial cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_7518_KD_TRDMT1_SRP217219	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-13.5225
H3K4me3_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE144919,GSE145177_1_v_0_dazl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
mammillary body, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.12843
YY1_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE149264,GSE149267_4_v_5_trp53_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebellar cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.77844
H3K27ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_GM12866_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE169356_0_v_1_ivermectin_human	RummaGEO Drug Perturbation Signatures	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	1.02226
CDC42SE2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04787
cellular macromolecule localization	GO Biological Process Annotations 2015	1.0	null
ADGRB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.64942
HCC515	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.864972
BCAR1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.57243
abnormal renal/urinary system morphology	MPO Gene-Phenotype Associations	1.0	null
Lung adenocarcinoma_LUAD_TCGA-44-6776-01A-11R-1858-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
abnormal cell morphology	MPO Gene-Phenotype Associations	1.0	null
tight	GeneRIF Biological Term Annotations	1.0	null
GSE239688_2_v_5_canagliflozin_human	RummaGEO Drug Perturbation Signatures	1.0	null
RPS8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.41909
abnormal respiration	MPO Gene-Phenotype Associations	1.0	null
Paranodal junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.658
ChIP_DMAP1_20946988	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A3XD-01A-22R-A239-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Urogenital Abnormalities	CTD Gene-Disease Associations	1.0	1.24781
GSE250534_0_v_3_cabergoline_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EZH2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tight junction	GO Cellular Component Annotations 2015	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A3EO-01A-11R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain - Putamen (basal ganglia)	GTEx Tissue Gene Expression Profiles 2023	1.0	1.29553
TMEM160	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02951
occipital pole, left, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.48918
RPRD1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.33586
SG in rostral perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.901934
18625725-TableS1	GeneSigDB Published Gene Signatures	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7304-02A-12R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ATF3_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE79696_0_v_1_hdac3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SMC4-20622854-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE127790_4_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AU565	CCLE Cell Line Gene CNV Profiles	-1.0	-1.40037
Kidney renal papillary cell carcinoma_KIRP_TCGA-WN-A9G9-01A-12R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
GSE252864_0_v_3_smad4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SARS-CoV_84Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.10087
OV-90	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.05628
USF1_A549_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATG16L1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.66705
Hepatocellular carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.047
H3K4me3_cardiac mesoderm_hg19_8	ENCODE Histone Modification Site Profiles	1.0	null
GSE82032_3_v_1_trametinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
overexpression	GeneRIF Biological Term Annotations	1.0	null
Microvillar actin bundle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.611
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
TCF12_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE158197_2_v_3_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ED-A7PX-01A-51R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
inferior occipital gyrus, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.29973
abnormal proximal convoluted tubule brush border morphology	MGI Mouse Phenotype Associations 2023	1.0	null
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.753
H3K36me3_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
central nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.78432
abnormal respiratory conducting tube morphology	MPO Gene-Phenotype Associations	1.0	null
H3K27ac_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE88819_5_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Basolateral plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.395
H3K27me3_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE234514,GSE234516_2_v_0_mitf_human	RummaGEO Gene Perturbation Signatures	1.0	null
establishment or maintenance of epithelial cell apical/basal polarity	GO Biological Process Annotations 2025	1.0	null
Body wall	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.661
ZNF136	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.6164
GSE210580_0_v_7_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
urogenital system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054595
Amnioserosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.391
Intraciliary transport particle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.074
Colorectal carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.086
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_Colonic Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Tight junction	KEGG Pathways 2026	1.0	null
ZNF76	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.5667
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HNF1A_HNF1A	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_5934_KD_MRTO4_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.6171
ZSCAN21	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1172
USF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
interpeduncular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.11696
GSE174701_4_v_0_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H889	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.86721
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
MAX_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1573	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03074
PMC5932588__F1	PFOCR Pathway Figure Associations 2023	1.0	null
USF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HNF4A	JASPAR Predicted Transcription Factor Targets	1.0	null
extracellular region part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
H3K4me3_epithelial cell of proximal tubule_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Epithelial cell_Lung_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E1-01A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma_LUAD_TCGA-05-5423-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Plagl1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	36.4121
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
SNU489	CCLE Cell Line Gene Expression Profiles	-1.0	-1.83926
Podocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.322
Depressive Disorder	CTD Gene-Disease Associations	1.0	1.02299
SNU119	CCLE Cell Line Gene Expression Profiles	1.0	1.7201
SP in entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.05652
WC-09-GD62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.794631
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE217452_3_v_1_docetaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC6522222-NIHMS977514-supplement-Sup_Table_15.xlsx-WT3_WT5-Unnamed_0_POU6F2	Rummagene Transcription Factor Associations 2026	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-FOXA1_FOXA1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC9692040-mmc1.xlsx-4_SAFB2_IP_significance-T_T_Gene_names_SAFB2	Rummagene Transcription Factor Associations 2026	1.0	null
abnormal kidney epithelium morphology	MGI Mouse Phenotype Associations 2023	1.0	null
ELF1_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01474
amygdaloid complex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.49647
H3K4me3_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
primary motor cortex (area M1, area 4)_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.05085
fat_8b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5469-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
multiform (lateral) division of MD	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.87136
Cell junction organization	Reactome Pathways 2014	1.0	null
stratum basale	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.190447
positive regulation of cell junction assembly	GO Biological Process Annotations 2023	1.0	null
GSE98898_7_v_2_hoxa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.544
MZ in granular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.39638
GSE217405_0_v_1_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SMARCA5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03375
globose nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.24638
GTEX-XQ8I-0926-SM-4BOOF	GTEx Tissue Sample Gene Expression Profiles	1.0	0.854824
Perturb_10781_KO_Ahr_SRP326814	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.0615
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A7OL-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mRNA_EOMES_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE110268_1_v_3_foxd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.045806
GATA1_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE209938_0_v_1_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC3426783__F4	PFOCR Pathway Figure Associations 2023	1.0	null
GTEX-XQ8I-0426-SM-4BOPO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830637
cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.307749
H3K4me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_G1E-ER4_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM149PT	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.730212
posterior (caudal) superior temporal cortex (area 22c)_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.20464
extracellular vesicular exosome	GO Cellular Component Annotations 2015	1.0	null
FOXF2	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K4me1_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
internal female genital organ	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
TAF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
macromolecular complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.042152
TCF12_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREM	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.2174
NCIH1836	CCLE Cell Line Gene CNV Profiles	1.0	2.05896
POLR2AphosphoS5_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE179974_3_v_2_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
KCNK5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.87224
endoproteolysis	GeneRIF Biological Term Annotations	1.0	null
H3K4me3_MCF-7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GFI1B	ChEA Transcription Factor Targets	1.0	null
membrane	GeneRIF Biological Term Annotations	1.0	null
H3K4me3_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cerebellum_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.68434
GSE88819_5_v_12_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VD-76-SO91_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.341785
ZNF384_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7123-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
CREB3L4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.896
ARGFX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.0009
GSE245418_0_v_2_cd109_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-S4P3-0426-SM-4AD56	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05462
KDM4A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NR2F2_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147283_1_v_3_arid1a_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE135400_2_v_0_kdm1b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebralcortex	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.05228
posteroventral (inferior) parietal cortex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07127
PAR polarity complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.9
GSE248659_1_v_0_klf5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Microvillus	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.85
GSE202434,GSE202438_4_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE147876,GSE147877_2_v_5_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Adenoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.054
Nr1h4	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	17.4103
Perturb_285_KD_GPD1L_SRP303690	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
abnormal small intestine morphology	MPO Gene-Phenotype Associations	1.0	null
DMS 454	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.864972
HCC1187	CCLE Cell Line Gene CNV Profiles	1.0	1.394
abnormal cilium morphology	MPO Gene-Phenotype Associations	1.0	null
GTEX-POYW-1326-SM-48TCG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.990992
rectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.50275
GSE198826,GSE198911_1_v_2_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
abnormal respiratory motile cilium morphology	MGI Mouse Phenotype Associations 2023	1.0	null
Neuroma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.047
H3K4me1_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Retinal stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.073
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-XBP1_XBP1	Rummagene Transcription Factor Associations 2026	1.0	null
Plasma membrane region	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
GATA1-19941827-MEL-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_A549_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
VZ in caudal subicular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.6677
abnormal club cell morphology	MGI Mouse Phenotype Associations 2023	1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
Charcot-Marie-Tooth disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.11
KATO III	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73651
PMC11684804-jci-135-174981-s193.xlsx-DESeq2_pseudobulk_AA_Ag_vs_Pre-Gene_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
17660535-TableS4a	GeneSigDB Published Gene Signatures	1.0	null
Cell-cell junction organization	Reactome Pathways 2014	1.0	null
SARS-dORF6_84Hour_23935999_GSE47962	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.42132
GSE48812_11_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
496100455_FWM_dementia_TBI_86_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.48207
GSE158197_2_v_10_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EE-03-SG02_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.292754
ZNF384_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF567	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.32738
GSE82110,GSE82299_1_v_0_acriflavine_human	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2A_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Physical disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.64
Cell trailing edge	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.957
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.892
GSE199092_1_v_0_ddx5_human	RummaGEO Gene Perturbation Signatures	1.0	null
PSMD7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57071
RCOR1	ENCODE Transcription Factor Targets	1.0	null
AKNA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04555
orbital frontal cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.49364
GTEX-PWN1-0626-SM-48TDT	GTEx Tissue Sample Gene Expression Profiles	1.0	1.09224
BRCA1_DEPLETION_GDS3791_502_human_Hela cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GTEX-XYKS-2126-SM-4E3IB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.855149
TECR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05659
PNGase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.842
cellular_component	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.281085
HC-74-HM63_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.41488
AA-23-FM46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.233607
KLF4-19030024-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
ZBTB8A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00669
YY1	ENCODE Transcription Factor Targets	1.0	null
HESX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	14.8203
USF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Germinal disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.396
Primary T cells from cord blood	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	1.0	2.0029
HUP-T3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.85616
inner CP in ventromedial extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.983174
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09301
UT7	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
cellular_component	GO Cellular Component Annotations 2015	1.0	null
GSE198165,GSE198166_0_v_2_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-XMK1-1726-SM-4B64Z	GTEx Tissue Sample Gene Expression Profiles	1.0	0.874479
OVCAR4	CCLE Cell Line Gene Expression Profiles	1.0	2.38027
NTMT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.09716
blastula	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.290652
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
PMC8040704-jcav12p2673s2.xlsx-Down-regulated_genes_in_EBF1-Unnamed_0_EBF1	Rummagene Transcription Factor Associations 2026	1.0	null
Pleated septate junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.636
anchoring junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.560528
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04614
Myelin sheath	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.131
GSE206729_5_v_0_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE195568_3_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
angular gyrus, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.829895
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A8HY-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
19621087-Table1a	GeneSigDB Published Gene Signatures	1.0	null
ACADS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04457
Mammary epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.615
CiliaryGanglion	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.931994
regulation of cell junction assembly	GO Biological Process Annotations 2023	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-J4-A67S-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pancreatic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.144
D-392MG	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE111035,GSE111040_10_v_9_plag1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GATA3_T47D_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pronephric duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.3
Kidney renal papillary cell carcinoma_KIRP_TCGA-B9-7268-01A-11R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K79me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC8040704-jcav12p2673s2.xlsx-Down-regulated_genes_in_EBF1-Unnamed_5_EBF1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE206516,GSE206518_1_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Inner medullary collecting duct cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.876
RFC2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19114
integral component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
leber congenital amaurosis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.5238
cellular protein localization	GO Biological Process Annotations 2015	1.0	null
LRRC73	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.14328
H3K79me2_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PARD6A	Pathway Commons Protein-Protein Interactions	1.0	null
BD-18-MM33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.852787
cytoplasmic	GeneRIF Biological Term Annotations	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-77-7139-01A-11R-2045-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SLR24	DepMap CRISPR Gene Dependency	1.0	7.11191
GTEX-XUW1-0426-SM-4BOOT	GTEx Tissue Sample Gene Expression Profiles	1.0	0.845486
SNU324	CCLE Cell Line Gene Expression Profiles	1.0	1.43371
plumule	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.06054
Posterior midgut	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.043
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3447-01A-01R-1766-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_HEK293_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-WFG8-1326-SM-4LVN3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.840705
GSE202434,GSE202438_10_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF135	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	111.296
ZNF143	ENCODE Transcription Factor Targets	1.0	null
GTEX-O5YT-0126-SM-48TBW	GTEx Tissue Sample Gene Expression Profiles	1.0	0.842513
MED14	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.34599
PMC6145927-41467_2018_5729_MOESM6_ESM.xlsx-TF_Activity_Genesets-FRA1_DN_FOSL1	Rummagene Transcription Factor Associations 2026	1.0	null
KHM1B	CCLE Cell Line Gene CNV Profiles	1.0	1.68822
GSE169590_6_v_5_rptor_human	RummaGEO Gene Perturbation Signatures	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-LP-A4AV-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-6869-01A-11R-1873-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Photophore	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.895
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE149075_8_v_0_foxa2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2AphosphoS5_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
vestibular system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.222224
outer SZ in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.857715
Perturb_13984_KO_Setd5_ERP110684	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.38127
VZ in thalamic region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.73664
GSE245134_2_v_3_atg5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE148262,GSE150691_1_v_2_hdlbp_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE146074_9_v_11_ly6e_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Anchoring junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.406
GATA1-19941827-MEL-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-6988-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE144500_7_v_6_ventx_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K9ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
16288205-GeneTable3	GeneSigDB Published Gene Signatures	1.0	null
TBX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3559
H2AFZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PANX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24901
H3K36me3_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MZ in caudal perirhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.62475
gastrointestinal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.13222
H3K27me3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.078407
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.665
Cytoplasmic side of nuclear pore	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.51
mRNA_SMAD7_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.323
VIIB, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.895909
Viral Infection Pathways	Reactome Pathways 2024	1.0	null
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.3803
U118MG	CCLE Cell Line Gene Expression Profiles	-1.0	-1.47238
dorsal thalamus_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.42563
Schwann cell microvillus	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.53
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_147_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
GSE206729_4_v_1_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
facilitates	GeneRIF Biological Term Annotations	1.0	null
Triple-Negative Breast Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
RPS5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.61577
ONS76	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34387
PMC9391581-mmc5.xlsx-KLF4_K409Q_vs_GFP-gene_name_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
cellular phenotype	MPO Gene-Phenotype Associations	1.0	null
Perturb_17423_KO_Cic_SRP126501	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.32092
H3K27me3_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Jun	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	29.3658
Rosette	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.114
RBM33	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59182
ECGI10	CCLE Cell Line Gene Expression Profiles	1.0	1.54382
PMC12717993-MEC-34-e17796-s002.xlsx-ST12_WGS_RFMix_genes_2_anc-Unnamed_14_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
Cerebral degeneration	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.185
SG in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3786
PMC12019518-ao5c02459_si_002.xlsx-Table_S3-Table_S3_Screening_of_genes_that_are_commonly_upregulated_in_cells_on_stiff_substrate_and_down-regulated_by_KD_of_UBE2A_B_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Male reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.014
GSE203308_7_v_10_brf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-91-8496-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HMGN3	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-HE-A5NK-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
Uropod	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.974
protein localization to cell periphery	GO Biological Process Annotations 2025	1.0	null
GSE226316_1_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
gamma-tubulin small complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.716
GSE88819_7_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
B3GALNT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.25098
SP4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5	ENCODE Transcription Factor Targets	1.0	null
GSE180277_0_v_1_bach2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
17603561-STable1	GeneSigDB Published Gene Signatures	1.0	null
plasma membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K27ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PEBP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.16397
Malignant Tumor Of Colon	DisGeNET Gene-Disease Associations	1.0	null
TCF12	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.2008
PMC7450273-mmc2.xlsx-ST12-Unnamed_4_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
PMC3226433-1756-8935-4-20-S1.XLS-Table_S4_Myc_KD_gene_exp_change-Genes_down-regulated_in_Myc_KD_hESC_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.295
skin	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053377
caudal subdivision of paraventricular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.824805
primary auditory cortex (core)_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.0865
SFSWAP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43299
USF1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Colonic adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.896
POLR2A_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AD-16-HL96_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.03925
FOS_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GATA1_G1E-ER4_mm9_9	ENCODE Transcription Factor Binding Site Profiles	1.0	null
excretory gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053604
primary somatosensory cortex (area S1, areas 3,1,2)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.11833
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.745
GTEX-U3ZN-2126-SM-4DXU1	GTEx Tissue Sample Gene Expression Profiles	1.0	0.905367
EMC6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40415
perinatal lethality, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
Microtome section	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.671
cuneate nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.881518
hsa-miR-3974	TargetScan Predicted Conserved microRNA Targets	1.0	0.15008
NCO2	CCLE Cell Line Gene CNV Profiles	1.0	1.94172
SARS-CoV-2 targets PDZ proteins in cell-cell junction	Reactome Pathways 2024	1.0	null
Lung carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.166
GTEX-U412-0426-SM-3DB9O	GTEx Tissue Sample Gene Expression Profiles	1.0	0.837722
CCDC186	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.53319
H3K27me3_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2795	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.20871
Recycling endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.405
H3K4me3_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE184892_6_v_1_trehalose_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Colonic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.252
EEF1G	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-7.82121
DETROIT 562	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.5057
RAD21_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04089
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.863887
SIN3A_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
plant embryo	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059515
Tricellular tight junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.548
SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.0435
germ layer	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060111
hairy cell leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.876974
GSE231648_4_v_2_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE130081,GSE130082_0_v_10_neil2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
HCFC1	ENCODE Transcription Factor Targets	1.0	null
GSE199899_4_v_2_diethylnitrosamine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-64-1677-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	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
V, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.919888
POLR2AphosphoS2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM 229PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.996384
Mammary epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.579
GSE169571_5_v_1_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
SOX15	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.7885
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-7061-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF384_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
short insular gyri, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.956068
RUNX1-30185409-HPC-MOUSE-BONEMARROW-LEUKEMIA	ChEA Transcription Factor Targets 2022	1.0	null
GSE111247_11_v_13_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Cell cortex region	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.598
GSE228017_0_v_1_parthenolide_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
Perturb_18610_KO_Btnl2_SRP324170	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.08358
SEC13	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.22397
F36P	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70068
PMC2866657-pone.0010547.s001.xls-ERG-high-GENES_UPREGULATED_IN_ERGhigh_ERG	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCIH747	DepMap CRISPR Gene Dependency	1.0	3.49207
Lung squamous cell carcinoma_LUSC_TCGA-94-A5I4-01A-11R-A26W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MEIS2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.6551
Heart	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.17031
GATA2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.6346
Lung adenocarcinoma_LUAD_TCGA-05-5429-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TCF7L2_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE253041_1_v_0_ramp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Trachea	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
tuberous sclerosis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.613965
H3K4me1_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SU-DHL-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59965
H3K27ac_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Hepatobiliary disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.093
PMC11555823-supplementaltable4_ddae135.xlsx-Sheet1-Genes_inversely_regulated_between_MDS_and_RTT_iNeurons_MECP2	Rummagene Transcription Factor Associations 2026	1.0	null
20081105-ST-2	GeneSigDB Published Gene Signatures	1.0	null
abnormal survival	MPO Gene-Phenotype Associations	1.0	null
Basal cortex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.028
GSE175787_5_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE217982,GSE217983_2_v_3_hgfac_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-OOBJ-1526-SM-3NB1Q	GTEx Tissue Sample Gene Expression Profiles	1.0	0.856869
Perturb_13210_KO_Mbd3_ERP001253	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	11.6934
Autosomal genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.523
CTCF_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.1376
CB-16-SY72_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.17093
NR2F2	ENCODE Transcription Factor Targets	1.0	null
EZH2_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nr2f6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	52.0736
GF-46-FA29_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212485
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.25553
MXI1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cilium	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.738
GSE135244_0_v_1_trdmt1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
DEL	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35442
H3K4me3_HCT116_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
QRICH1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27235
H3K27ac_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MSANTD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.0455
GTEX-Q2AI-0826-SM-48TZO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.861825
Endometriosis	DisGeNET Gene-Disease Associations	1.0	null
GSDMD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34456
E2F1-20622854-HELA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Exocyst	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.607
GATA1_G1E-ER4_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cellular localization	GO Biological Process Annotations 2015	1.0	null
GSE199255,GSE199356_4_v_2_pds5a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
crumbs3	GeneRIF Biological Term Annotations	1.0	null
H3K27me3_mononuclear cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
Subapical complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.287
sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.507273
RPL35	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.48372
Extracellular exosome	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
amygdaloid complex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07127
H3K4me3_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CHAGO-K-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.60679
EIF2AK4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01715
Foxo3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.2787
H3K4me3_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE149264,GSE149267_9_v_3_trp53_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100497_FWM_no dementia_TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.0475
integral component of membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.289569
GTEX-R55G-1226-SM-48FDC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.931691
Pancreas	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
ATP6V1D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.12517
SIN3A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EFEMP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.01802
POLR2A_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.251
Astral microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.063
MZ in rostral entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.51066
decreased small intestinal microvillus size	MGI Mouse Phenotype Associations 2023	1.0	null
striatum_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.825101
Cytoplasmic dynein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.022
Human papillomavirus infection	KEGG Pathways 2026	1.0	null
dorsal thalamus_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.75551
emboliform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.996232
H3K27me3_CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE199092_2_v_0_ddx5_human	RummaGEO Gene Perturbation Signatures	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A6AW-01A-11R-A30C-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	0.220152
CDCA3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23171
ACER3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.9753
GSE188870,GSE188871_1_v_5_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_19 pcw_F_12885	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07254
PMC12500934-41408_2025_1358_MOESM3_ESM.xlsx-Table_S6-DEGs_p_0_05_between_surviving_or_deceased_DLBCL_patients_that_received_R-CHOP_therapy_DDIT3	Rummagene Transcription Factor Associations 2026	1.0	null
integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.674543
BT20	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.988958
Perturb_10910_KO_Thbs1_SRP276889	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.45632
NCI-H1944	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.880123
Brain Lower Grade Glioma_LGG_TCGA-S9-A6WN-01A-12R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cell-Cell communication	Reactome Pathways 2024	1.0	null
GSE239688_2_v_3_canagliflozin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A299-01A-21R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Rectum adenocarcinoma_READ_TCGA-DC-4745-01A-01R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TFAP2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00533
squamous epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.066527
GSE114284_4_v_3_irf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE234334,GSE234336_1_v_0_zhx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE226316_0_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE198165,GSE198166_9_v_11_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6436215-13073_2019_626_MOESM2_ESM.xlsx-PCM-IRF2_IRF2	Rummagene Transcription Factor Associations 2026	1.0	null
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16977
FB-66-UU47_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.94067
CORL279	CCLE Cell Line Gene CNV Profiles	1.0	1.9739
GTEX-Q2AI-0926-SM-48U1F	GTEx Tissue Sample Gene Expression Profiles	1.0	0.953736
GSE239578_0_v_7_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
abnormal bronchiole epithelium morphology	MPO Gene-Phenotype Associations	1.0	null
Extracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
sense organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.415053
GSE174701_5_v_8_maml3_human	RummaGEO Gene Perturbation Signatures	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-BC-A10Q-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SNU761	DepMap CRISPR Gene Dependency	1.0	11.7479
cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
kidney	HPA Tissue Protein Expression Profiles	1.0	2.98902
definition	GeneRIF Biological Term Annotations	1.0	null
Spot adherens junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.578
TBX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.882
GSE242083,GSE242098_2_v_0_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE202434,GSE202438_9_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Apical plasma membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Septate junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.516
renal interstitial fibrosis	MGI Mouse Phenotype Associations 2023	1.0	null
MLX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.7042
Lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.296
cdx2_20696899_caco2_lof_human_gpl570_gse22572	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.144344
Prostate adenocarcinoma_PRAD_TCGA-KC-A7F5-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE143782_3_v_4_calcitriol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00041
H4K20me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE242083,GSE242098_3_v_4_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
fastigial nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.29699
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32167
H3K27me3_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Conventional (Clear Cell) Renal Cell Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
GSE217405_0_v_1_osimertinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
ZKSCAN3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.381
SNU1214	CCLE Cell Line Gene CNV Profiles	-1.0	-2.23893
Nerve ring	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.616
TFE3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.3263
Internode region of axon	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.895
renal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.430312
CTCF_CH12.LX_mm9_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
plasma membrane region	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.008503
abnormal pulmonary acinus morphology	MPO Gene-Phenotype Associations	1.0	null
blastomere	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.775664
PMC4631357-pcbi.1004571.s015.xls-Signatures-ZEB1_EMTreg_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
cell junction assembly	GO Biological Process Annotations 2015	1.0	null
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-ICM_JUN-Unnamed_1_JUN	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_B cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Zonula adherens	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.722
DB	CCLE Cell Line Gene CNV Profiles	1.0	2.11649
Brain - Amygdala	GTEx Tissue Gene Expression Profiles 2023	1.0	1.74612
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
496100303_HIP_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.10756
CREB3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.302
macromolecule localization	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-5185-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE223287,GSE223290_2_v_4_braf_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
neonatal lethality, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
photoreceptor	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.519647
Uterus	GTEx Tissue Gene Expression Profiles 2023	1.0	1.24835
macromolecular complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.03318
tsc1-tsc2 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.176305
PKIB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.80407
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A7OP-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BORA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18876
NCIH1869	CCLE Cell Line Gene Expression Profiles	1.0	1.4746
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	47.4798
HEG1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02302
Benign neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.222
occluding junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.715014
Imaginal disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.627
KC-36-DK23_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.227221
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09659
REC1	CCLE Cell Line Gene CNV Profiles	1.0	1.7976
OCILY3	CCLE Cell Line Gene Expression Profiles	1.0	1.38406
ventrolateral prefrontal cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07833
abnormal renal tubule morphology	MPO Gene-Phenotype Associations	1.0	null
Reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Lung adenocarcinoma_LUAD_TCGA-64-1678-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6335596-mmc2.xlsx-RNA-seq_Day_3_GATA6_Het-Unnamed_13_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
viscus	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE217405_3_v_2_osimertinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Cleavage furrow	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.118
Head	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Skin - Sun Exposed (Lower leg)	GTEx Tissue Gene Expression Profiles 2023	1.0	2.46918
PMC7773934-Table_1.XLSX-Table_S2-Supplementary_Table_2_TBX22_co-expressed_genes_detailed_results_TBX22	Rummagene Transcription Factor Associations 2026	1.0	null
GATA1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
16872506-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05069
abnormal small intestinal villus morphology	MGI Mouse Phenotype Associations 2023	1.0	null
POLR2AphosphoS5_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAZ_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DDIAS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.06449
GTEX-W5WG-1826-SM-4KL2Y	GTEx Tissue Sample Gene Expression Profiles	1.0	0.892093
CTCF_G1E-ER4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE156923_0_v_3_rbmx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Tight junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.423
plasma membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
seed	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05795
JHUEM1	CCLE Cell Line Gene Expression Profiles	1.0	2.21588
hypocotyl	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060225
pyrazinamide_mus musculus_gpl6246_gse48027	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.0
496100462_PCx_dementia_TBI_86_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.28711
PMC9307901-mmc2.xlsx-S5-GATA6-AS1_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
EZH2_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZBTB32	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.7766
GSE239578_0_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
IZ in midlateral extrastriate cortex (area 19)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.1365
GSE65617_0_v_4_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_95_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3458-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
effect	GeneRIF Biological Term Annotations	1.0	null
layer I of piriform cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.526
GSE198165,GSE198166_5_v_10_zfp266_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung adenocarcinoma_LUAD_TCGA-78-7152-01A-11R-2039-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HN	CCLE Cell Line Gene CNV Profiles	1.0	1.36733
GSE111247_14_v_9_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HEC1A	CCLE Cell Line Gene Expression Profiles	1.0	1.86676
abnormal intestine morphology	MGI Mouse Phenotype Associations 2023	1.0	null
tcof1_15522210_neuroblastoma_gof_mouse_gpl339_gds998	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.942941
Lung adenocarcinoma_LUAD_TCGA-35-3615-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-A6DA-01A-31R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-RXRA_RXRA	Rummagene Transcription Factor Associations 2026	1.0	null
SRPK3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25642
16488994-SuppTable1a	GeneSigDB Published Gene Signatures	1.0	null
Integrin alpha6-beta1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.64
HCC78	CCLE Cell Line Gene Expression Profiles	1.0	1.38835
X, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.944433
ASCL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	67.4804
U266B1	CCLE Cell Line Gene CNV Profiles	1.0	1.77714
grhl3_16949565_skin_lof_mouse_gpl1261_gds2629	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.494946
MV-4-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13421
reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
CAKI-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.49183
single-organism cellular process	GO Biological Process Annotations 2015	1.0	null
GSE129244_3_v_5_lmo2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE188721_2_v_4_mesp1_human	RummaGEO Gene Perturbation Signatures	1.0	null
496100600_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	3.09614
Urinary system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.414
hematopoietic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056684
ciliogenesis	GeneRIF Biological Term Annotations	1.0	null
Ppara	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.1639
Renal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.763
GABPA	ENCODE Transcription Factor Targets	1.0	null
KDM4A	ENCODE Transcription Factor Targets	1.0	null
Collecting duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.39
Lateral loop	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.457
GSE220813_0_v_1_zfp750_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MXI1	ENCODE Transcription Factor Targets	1.0	null
HDAC2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2-23942234-MYOBLASTS AND MYOTUBES-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-QCQG-0526-SM-48U2A	GTEx Tissue Sample Gene Expression Profiles	1.0	0.943008
Brain Lower Grade Glioma_LGG_TCGA-S9-A6WH-01A-12R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC12611713-Table2.xlsx-Sheet_1-Training_Database_AND_Validation_Database_NOT_Diabetes_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE114284_2_v_0_irf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
components	GeneRIF Biological Term Annotations	1.0	null
supramarginal gyrus, left, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.07186
orbital frontal cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.944528
cell-cell junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.454
central nuclear group	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.42425
intrinsic component of membrane	GO Cellular Component Annotations 2015	1.0	null
PHF8_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF460	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	127.909
BHLHE41	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.6315
OCIMY7	CCLE Cell Line Gene CNV Profiles	1.0	1.37128
Female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.186
KATOIII	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34272
intracellular organelle part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040974
PMC10794847-mmc5.xlsx-PIAS1_KD_up-Table_S4_Differentially_expressed_genes_with_PIAS1_knockdown_in_the_progenitors_state_Related_to_Figure_5_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_4_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MYF6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.1707
GSE166944_0_v_2_eif4b_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Artery - Tibial	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.620047
SUM1315MO2	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.4008
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A6JM-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE48812_4_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
establishment or maintenance of apical/basal cell polarity	GO Biological Process Annotations 2025	1.0	null
FB-66-UU47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.00467
cisplatin_mus musculus_gpl339_gse6206	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE206729_5_v_1_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A_HepG2_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
extracellular region	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A4OZ-01A-12R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma_LUAD_TCGA-78-7537-01A-11R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CRELD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.1551
CMTM3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.84179
H3K4me1_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MGA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.1936
hsa-miR-4428	TargetScan Predicted Conserved microRNA Targets	1.0	0.088999
HDLM2	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
GSE43041,GSE43044_0_v_1_ldb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
USF1_A549_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS578T	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.849014
H3K4me3_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.459
Cell projection membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.583
hsa-miR-3189-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
Basal part of cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.557
Cluster of actin-based cell projections	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.499
limb bud	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.42649
HDAC2	ENCODE Transcription Factor Targets	1.0	null
Internal female genital organ	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
ZEB1	ENCODE Transcription Factor Targets	1.0	null
Epiblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.401
CTCF_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hsa-miR-548ah	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
GSE90710_1_v_0_med13_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
496100478_HIP_dementia_TBI_86_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.13963
OCI-AML5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.953909
GSE120216_3_v_0_cbfb_human	RummaGEO Gene Perturbation Signatures	1.0	null
Terminal bronchiole	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.669
UMRC7	DepMap CRISPR Gene Dependency	1.0	10.8996
BE-79-QU25_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.272876
GSE150669_2_v_3_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H2AFZ_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
apical part of cell	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.766804
POLR2A_bone marrow macrophage_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pupal wing	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.225
SNAI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2788
ZNF85	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	60.5223
mediodorsal nucleus of thalamus_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.11659
cochlear nuclei	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.942621
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A6C6-01A-21R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1937	CCLE Cell Line Gene Expression Profiles	1.0	1.42194
female reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE57871_1_v_12_vorinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
OVMANA	CCLE Cell Line Gene Expression Profiles	1.0	1.44662
POLR2A_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
occluding junction	GO Cellular Component Annotations 2015	1.0	null
Monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.573
dorsal thalamus_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.52834
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.582
COACH syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.03
Childhood Pineoblastoma	DisGeNET Gene-Disease Associations	1.0	null
cochlear nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.74627
GTEX-U4B1-1126-SM-4DXV3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.850927
ATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.7428
MYC	ENCODE Transcription Factor Targets	1.0	null
Extracellular vesicle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
hsa-miR-4735-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
gata3_21892208_mda_mb_231_gof_human_gpl570_gds4080	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.324058
PPP1R13B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.30482
FOSL2::JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.2343
Mesothelioma_MESO_TCGA-MQ-A6BN-01A-12R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mesenchymal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.538
H3K4me3_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CLOCK	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1076
GSE174701_1_v_7_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2867-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-2467-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.32519
FB-66-UU47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.438057
SH3 domain binding	GO Molecular Function Annotations 2023	1.0	null
GSE118617,GSE118619_0_v_1_foxp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
whole plant	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052426
Perturb_5107_OE_Yy1_SRP281855	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
CHD1	ENCODE Transcription Factor Targets	1.0	null
t62-spleen_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	7.07057
SNB19	CCLE Cell Line Gene Expression Profiles	-1.0	-1.4605
mRNA_ESX1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
mRNA_POU5F1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
STOML2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.67499
H3K4me3_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Spermatheca	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.7
ZBTB7A	ENCODE Transcription Factor Targets	1.0	null
USF1_A549_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ABHD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.63958
KMS27	CCLE Cell Line Gene CNV Profiles	1.0	1.59062
cell-cell junction	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
HCFC1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Henles loop	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.807
Anxiety Disorders	CTD Gene-Disease Associations	1.0	1.29072
muscle	GTEx Tissue Gene Expression Profiles	-1.0	-1.51184
mRNA_NIPBL_20720539	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE153189_1_v_3_interferon gamma_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
HOXD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.702
H3K4me3_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
epithelial	GeneRIF Biological Term Annotations	1.0	null
GTEX-UPIC-1726-SM-4IHKG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.837246
GSE239844_11_v_9_crizotinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
hsa-miR-558	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9GU-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IN-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
19139136-TableS3	GeneSigDB Published Gene Signatures	1.0	null
apical junction complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.976619
positive regulation of cellular component organization	GO Biological Process Annotations 2025	1.0	null
GABPA_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormal small intestinal microvillus morphology	MPO Gene-Phenotype Associations	1.0	null
membrane part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.246407
POLR2A_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PPARG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.6071
NCIH647	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33811
HECA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.90113
colonic cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.144045
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-Mor_CTCF-Unnamed_1_CTCF	Rummagene Transcription Factor Associations 2026	1.0	null
GSE175787_11_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Rixosome complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.019
GSE149901_3_v_1_anlotinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GATA1_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cell junction organization	Reactome Pathways 2024	1.0	null
Actin cap	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.802
PMC12062214-41467_2025_59646_MOESM5_ESM.xlsx-HMGA2_activated_repressed-Gene_symbol_HMGA2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE143212_1_v_2_bleomycin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
pb1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.237
Stratum basale	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.561
caco-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.734323
GSE211425_1_v_0_mettl3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9530161-41419_2022_5296_MOESM2_ESM.xlsx-Tab10_KDM5C-KD-up-DKD-rescued-Table_10_Up-regulated_genes_in_KDM5C-KD_and_rescued_genes_in_DKD_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE175787_8_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MAX_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cell-cell junction	GO Cellular Component Annotations 2025	1.0	null
Extrinsic component of plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.35
striatum_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01472
GATA2	ChEA Transcription Factor Targets	1.0	null
GSE174701_4_v_7_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
actin-based cell projection	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.77
adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.066213
Head and Neck squamous cell carcinoma_HNSC_TCGA-T2-A6WZ-01A-21R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
establishment or maintenance of apical/basal cell polarity	GO Biological Process Annotations 2023	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-22-5491-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PARD6B	Pathway Commons Protein-Protein Interactions	1.0	null
Eye	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K4me1_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SG in rostral entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.25466
GSE116354,GSE117379_2_v_4_cox2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
skeletalmuscle_a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
GSE174701_5_v_3_maml3_human	RummaGEO Gene Perturbation Signatures	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A9FF-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Estrogen Receptor-Negative Breast Cancer	DisGeNET Gene-Disease Associations	1.0	null
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-Mor_CTCF-Unnamed_2_CTCF	Rummagene Transcription Factor Associations 2026	1.0	null
H3K9ac_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Oxyntic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.705
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IO-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.227642
GATA1_G1E-ER4_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
autosomal dominant disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.055216
kidney cysts	MPO Gene-Phenotype Associations	1.0	null
JHH1	DepMap CRISPR Gene Dependency	1.0	8.27081
Brain Lower Grade Glioma_LGG_TCGA-HT-7620-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-8258-11A-01R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_3991_KD_Zeb1_ERP109420	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	16.8435
FOSL2	ENCODE Transcription Factor Targets	1.0	null
superior parietal lobule, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.21337
PrefrontalCortex	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.19686
EP300_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
caudal portion of VFC (area 44)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.18911
GSE236502_1_v_3_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TRIM14	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18466
reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054407
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.15897
PWP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02116
GSE239578_0_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9886955-41420_2023_1325_MOESM12_ESM.xlsx-H6_14AvsH6_NC-Unnamed_2_HMX1	Rummagene Transcription Factor Associations 2026	1.0	null
GABPA_MCF-7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mo-b cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.934054
Perturb_15641_KO_Shh_ERP023558	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.01516
retina	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.609332
KMRC3	DepMap CRISPR Gene Dependency	1.0	10.1392
USF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
pavement epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.696172
Endoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.307
GSE137914_0_v_3_tet3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Rarb	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	108.413
GSE157555,GSE157556_0_v_6_foxa2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-RWS6-0826-SM-47JXF	GTEx Tissue Sample Gene Expression Profiles	1.0	0.882416
ELF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lethality during fetal growth through weaning	MPO Gene-Phenotype Associations	1.0	null
establishment or maintenance of epithelial cell apical/basal polarity	GO Biological Process Annotations 2023	1.0	null
GPN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.72815
BHLHE40_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Congenital diarrhea	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.501
MAX_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE151829,GSE151831_1_v_0_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-ICM_JUN-Unnamed_3_JUN	Rummagene Transcription Factor Associations 2026	1.0	null
HCC70	CCLE Cell Line Gene CNV Profiles	-1.0	-1.68969
CAPNS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14116
SAYSD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.00582
extracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
Lung adenocarcinoma_LUAD_TCGA-62-A46P-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ventrolateral prefrontal cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.831158
GTEX-TKQ1-1026-SM-4GICL	GTEx Tissue Sample Gene Expression Profiles	1.0	0.887337
GSE227592_4_v_1_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE172295_4_v_2_sh3gl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RXRA-24833708-LIVER-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-X88G-0126-SM-47JZ3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.93658
Cell cortex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.886
UHRF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00836
disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.043921
colonrectum_a	HPA Tissue Sample Gene Expression Profiles	1.0	0.841945
GSE195568_2_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
ELF1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Basal ectoplasmic specialization	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.821
Capsular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.322
ARHGEF10L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04641
GSE65617_0_v_1_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE184892_6_v_3_trehalose_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16768
Blastoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.731
Prostate adenocarcinoma_PRAD_TCGA-EJ-7781-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_47_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
PMC3748736__F1	PFOCR Pathway Figure Associations 2024	1.0	null
GSE168587,GSE168752_3_v_1_tp53_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_Pancreatic Islets	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CACO-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.529
protein localization to plasma membrane	GO Biological Process Annotations 2023	1.0	null
QE-79-XO29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.363646
Pupa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.781
Perturb_16731_KO_Myc/Pin1_SRP069191	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.72779
GSE158197_6_v_3_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CCND1-20090754-RETINA-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Necrosis	CTD Gene-Disease Associations	1.0	1.23712
H3K27me3_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
extracellular region part	GO Cellular Component Annotations 2015	1.0	null
NHBE cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.638
GSE168233_0_v_1_setdb1_human	RummaGEO Gene Perturbation Signatures	1.0	null
OVCAR-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.853886
stratified epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.608124
H3K4me3_cardiac mesoderm_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
NPHP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.736
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_64_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
GSE225762_1_v_0_pcmt1_human	RummaGEO Gene Perturbation Signatures	1.0	null
ATP5MGL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06415
developmental disorder of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.047293
KLF4-18555785-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.5399
lateral hypothalamic area, mammillary region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.948278
CTCF_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
EZH2_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE223893_11_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Elk-1	MotifMap Predicted Transcription Factor Targets	1.0	null
GTEX-U4B1-1026-SM-4DXT1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21706
medial group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.990763
H3K4me3_CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GlobusPallidus	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	0.884539
inferolateral temporal cortex (area TEv, area 20)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.6886
MCAS	DepMap CRISPR Gene Dependency	1.0	3.47327
Perturb_12063_KO_Stat5a/Stat5b_SRP012574	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE248501_1_v_0_mst1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-XBED-1526-SM-4AT5W	GTEx Tissue Sample Gene Expression Profiles	1.0	0.868292
retina	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE151412_2_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ADCYAP1R1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.16251
PMC8402498__F11	PFOCR Pathway Figure Associations 2024	1.0	null
H3K4me3_retinal pigment epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
ovary_6b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
GSE206729_4_v_0_trps1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PTER	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.77138
H3K4me3_HepG2_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-U4B1-0826-SM-4DXTW	GTEx Tissue Sample Gene Expression Profiles	1.0	0.92519
E2F1-26619117-HEPATOCYTES-MOUSE-LIVER	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3609	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
Gastric epithelium cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.522
arcuate nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.89253
GSE161170,GSE161268_1_v_3_med1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Junctional membrane complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.589
SG in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	3.33162
H3K27ac_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hnf4a_21852396_wao9_lof_human_gpl570_gds3926	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.497328
Lung adenocarcinoma_LUAD_TCGA-NJ-A55O-01A-11R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC4607655__F3	PFOCR Pathway Figure Associations 2023	1.0	null
USF1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
fetus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060965
PMC3376383__F2	PFOCR Pathway Figure Associations 2023	1.0	null
GSE205976,GSE205978_2_v_4_cep83_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PL45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.868417
positive regulation of cellular component biogenesis	GO Biological Process Annotations 2025	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-UF-A71D-01A-12R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ciliary shaft	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.846
SPI1_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE237040_2_v_1_notch3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ChIP_KLF4_18555785	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
EZH2-23942234-MYOBLASTS-AND-MYOTUBES-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Lung adenocarcinoma_LUAD_TCGA-49-4488-01A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE133661_0_v_1_c19orf12_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE195713_0_v_1_lapatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
BCP1	CCLE Cell Line Gene CNV Profiles	1.0	1.33928
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
S100A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03086
glandular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.367129
PMC5989213-41467_2018_4462_MOESM8_ESM.xlsx-3-Supplementary_Data_3_List_of_2687_genes_differentially_expressed_between_SETBP1-G870S_and_Empty_293_FLP-In_lines_SETBP1	Rummagene Transcription Factor Associations 2026	1.0	null
cerebellar cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.06461
TAF1_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-FX-A2QS-11A-11R-A21T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Retinitis pigmentosa	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.77
ZNF770	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00744
GSE157894_1_v_0_cystine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
cellular component organization	GO Biological Process Annotations 2015	1.0	null
PMC2758293__F2	PFOCR Pathway Figure Associations 2024	1.0	null
HCC827GR5	CCLE Cell Line Gene Expression Profiles	1.0	1.36375
Brain Lower Grade Glioma_LGG_TCGA-HT-8105-01A-11R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
OVMANA	DepMap CRISPR Gene Dependency	1.0	3.01214
SPRED2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03648
Tracheal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.992
single-organism process	GO Biological Process Annotations 2015	1.0	null
H3K4me3_GM12864_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_HeLa-S3_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE96641_5_v_2_esrp2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_Neurosphere Cultured Cells Ganglionic Eminence Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
nerve	GTEx Tissue Gene Expression Profiles	-1.0	-0.870601
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.532
Clara cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.754
Extraembryonic tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.86
Neoplasm Metastasis	DisGeNET Gene-Phenotype Associations	1.0	null
Diarrhea	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.053
kidney cyst	MGI Mouse Phenotype Associations 2023	1.0	null
GSE182179_2_v_1_kdsr_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
FOSL2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE111247_11_v_9_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE169571_0_v_1_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A29G-06A-12R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Node of Ranvier	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.285
LRRC40	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16438
epithelioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062319
ZNF236	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18216
RPE	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.69017
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1686
A-431	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.56671
GSE127790_10_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ZBTB7B	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8863
morphogenesis	GeneRIF Biological Term Annotations	1.0	null
Lateral cell cortex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.647
SRF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.3282
protein binding	GO Molecular Function Annotations 2015	1.0	null
H3K4me3_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FADU	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00035
GSE179974_3_v_4_carboplatin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
VIIIA, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.997855
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73651
eye and adnexa disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.526904
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Retinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.645
hsa-miR-4724-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
tight junction	KEGG Pathways	1.0	null
USF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.205
colorectal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.156847
PC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42461
globe disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.530768
IGR-37	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.869623
cell junction organization	GO Biological Process Annotations 2015	1.0	null
SFT2D1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03921
PRKAR1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43214
STAT3	ENCODE Transcription Factor Targets	1.0	null
PMC11769652-EHF2-12-250-s001.xlsx-Sheet1-ZEB1_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE151829,GSE151831_5_v_8_aire_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Adherens junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.345
Perturb_5013_KO_Sall4_ERP122174	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
ventricular (matrix) zone of pons	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.74824
protein complex	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.03318
doxorubicin_homo sapiens_gpl10558_gse42531	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
PMC6436215-13073_2019_626_MOESM2_ESM.xlsx-PCM-NR1H2_NR1H2	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-UJHI-1126-SM-4IHLN	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05915
Prostate adenocarcinoma_PRAD_TCGA-HC-A6AO-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
retinitis pigmentosa	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.04167
SALE	CCLE Cell Line Gene Expression Profiles	1.0	2.01101
PMC3376383__F2	PFOCR Pathway Figure Associations 2024	1.0	null
nct	GeneRIF Biological Term Annotations	1.0	null
H3K4me3_Caco-2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
USF1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DETROIT562	CCLE Cell Line Gene CNV Profiles	1.0	1.70127
EP300_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
adherens junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.590553
H3K4me3_HCT116_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-P5-A5F6-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me3_cardiac mesoderm_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Tight junction interactions	Reactome Pathways 2014	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9H5-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TM-A84G-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7416-11A-01R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H2AFZ_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KMS-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09543
Gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
laminin-1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.893
GTF2F1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_epithelial cell of esophagus_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC9859043-elife-78421-supp9.xlsx-LHX8_P-Gene_symbol_LHX8	Rummagene Transcription Factor Associations 2026	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-UZ-A9PN-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
GSE181821_1_v_3_mov10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
extracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
POLR2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
USF1_A549_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
crb1	GeneRIF Biological Term Annotations	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-YY-A8LH-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Internode	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.75
PKNOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.7797
496100591_TCx_dementia_TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.12
Lung squamous cell carcinoma_LUSC_TCGA-92-8065-01A-11R-2247-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Eye degenerative disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.752
Disease of metabolism	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.009
skeletalmuscle_e	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
rectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.50275
spanning component of plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.345314
KYSE-270	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00144
PK59	CCLE Cell Line Gene CNV Profiles	-1.0	-1.71372
cyanosis	MGI Mouse Phenotype Associations 2023	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HNF1B_HNF1B	Rummagene Transcription Factor Associations 2026	1.0	null
GSE145323,GSE145324_1_v_4_rfx3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hippocampus (hippocampal formation)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.38354
PMC12821819-40478_2025_2173_MOESM9_ESM.xlsx-Supplementary_Table_3a-Supplementary_Table_3A_List_of_Top_1000_Genes_with_the_Highest_Stochasticity_by_JSD_in_the_ATRT-MYC_Subtype_MYC	Rummagene Transcription Factor Associations 2026	1.0	null
cell-cell junction	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Medullary collecting duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.965
Lung squamous cell carcinoma_LUSC_TCGA-56-8082-01A-11R-2247-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SARS-ddORF6_96Hour_23935999_GSE47961	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.30693
apical	GeneRIF Biological Term Annotations	1.0	null
GATA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.3287
ZBTB18	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.7088
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.127
Cell division site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.276
H3K4me3_epithelial cell of proximal tubule_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
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
hsa-miR-4722-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
Edinger-Westphal nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.3362
H3K4me3_LNCaP clone FGC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
VZ in caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.894573
importin	GeneRIF Biological Term Annotations	1.0	null
GTEX-OOBK-0625-SM-3LK5P	GTEx Tissue Sample Gene Expression Profiles	1.0	0.907243
lateral tuberal nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.830937
Viscus	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23298
H3K27me3_fibroblast of lung_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.502
CA2 field, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.899905
GSE121866_0_v_3_six4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
STAT3_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Colon Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
Apical recycling endosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.704
cell junction	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
abnormal small intestinal microvillus morphology	MGI Mouse Phenotype Associations 2023	1.0	null
inner SZ in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.70025
protein localization to membrane	GO Biological Process Annotations 2023	1.0	null
HCC1195	CCLE Cell Line Gene CNV Profiles	-1.0	-2.14174
Colon cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.232
AREB6	MotifMap Predicted Transcription Factor Targets	1.0	null
EOMES	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.9967
GSE122215,GSE122217_0_v_2_peg10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE223893_11_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MED4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45973
intrinsic component of plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.131344
GSE125011_0_v_2_cd83_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CTCF_GM12871_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XUJ4-1226-SM-4BOPD	GTEx Tissue Sample Gene Expression Profiles	1.0	0.853333
EZH2	ENCODE Transcription Factor Targets	1.0	null
VSX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.0335
cell-cell junction organization	GO Biological Process Annotations 2015	1.0	null
laminin-5 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.694
16484322-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
H3K4me3_HeLa-S3_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
SKMEL31	CCLE Cell Line Gene Expression Profiles	-1.0	-1.54097
Lung adenocarcinoma_LUAD_TCGA-67-3772-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
basomedial nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.22975
Prostate adenocarcinoma_PRAD_TCGA-H9-A6BX-01A-31R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
GSE127790_13_v_2_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ASCC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.40659
GSE255432_6_v_0_imeglimin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MAX_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC3702285-cddis2013211x6.pdf-296-ATF2_ATF2	Rummagene Transcription Factor Associations 2026	1.0	null
PMC4387713-supp_gad.255984.114_Table_S3.xlsx-S3A-Down_Dpy30_KD-Unnamed_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
egg	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.165293
GC-04-UF36_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.717491
CTCF_olfactory bulb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sense organ	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Ensheathing process	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.923
mRNA_OTX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
membrane organization	GO Biological Process Annotations 2015	1.0	null
ELF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
single-organism localization	GO Biological Process Annotations 2015	1.0	null
Drug-Induced Liver Injury	CTD Gene-Disease Associations	1.0	1.46621
GTEX-RTLS-2626-SM-46MUJ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.869676
PMC4176051__F2	PFOCR Pathway Figure Associations 2024	1.0	null
GSE223893_2_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
KDM5B	ENCODE Transcription Factor Targets	1.0	null
FIGLA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.3014
CMBL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.41909
INPP5K	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.01888
H3K4me3_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-QLQW-0426-SM-447A7	GTEx Tissue Sample Gene Expression Profiles	1.0	0.945865
SIN3A	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE140997_10_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE239844_11_v_2_crizotinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-WFG8-0326-SM-4LVN4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.849708
NANOG-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE88819_5_v_2_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE233049_1_v_3_atf3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
mIMCD-3 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.638
H3K4me3_HepG2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
blastodisc	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.182542
MSC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.2359
CTCF_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.40328
Slit diaphragm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.957
FOS_MCF 10A_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
paracentral lobule, posterior part, left, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.891247
PMC5932588__F1	PFOCR Pathway Figure Associations 2024	1.0	null
nicotine_mus musculus_gpl1261_gse31004	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A7SH-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SW837	CCLE Cell Line Gene CNV Profiles	-1.0	-1.53069
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.03855
H9 Cells	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	-1.0	-1.29389
Perturb_9615_KO_Mll1_SRP255888	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.78198
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.529
GSE154577_6_v_12_plagl1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
KIF2A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.11634
LXFL529	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.69612
GSE60217_1_v_2_inosine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-S341-1726-SM-3K2AK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.915751
H3K4me3_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
anterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.3498
Head and Neck squamous cell carcinoma_HNSC_TCGA-MT-A7BN-01A-12R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
OVISE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.932596
cytosolic part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.054664
GSE139348,GSE139349_1_v_0_dicer1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
membrane part	GO Cellular Component Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A7AQ-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE218879_1_v_2_acetaminophen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
cisplatin_mus musculus_gpl339_gds3099	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.249653
17638893-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
GSE48812_0_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
MAZ_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Trophectoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.202
BHLHE40_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Autosomal recessive disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.37
ADCY3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.69347
membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.273
H3K27me3_BJ_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE249893_1_v_0_tfam_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
polycystic kidney	MGI Mouse Phenotype Associations 2023	1.0	null
H3K4me3_MCF-7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00144
abnormal small intestinal villus morphology	MPO Gene-Phenotype Associations	1.0	null
H3K4me3_A549_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
cell-cell contact zone	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.015
H3K4me3_H7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
POGLUT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.73039
GSE184902_4_v_1_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
urinary system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055107
GFI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.7282
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A5SF-01A-11R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-PWN1-1526-SM-48TDA	GTEx Tissue Sample Gene Expression Profiles	1.0	0.911572
H3K4me3_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062832
positive regulation of cellular component biogenesis	GO Biological Process Annotations 2023	1.0	null
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
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
outer SZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.45996
Perturb_3992_KD_Zeb1_ERP109420	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GTEX-SNMC-0626-SM-4DM6H	GTEx Tissue Sample Gene Expression Profiles	1.0	0.928425
Junctional zone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.281
FEZF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	70.9925
H3K4me1_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE244233_1_v_0_quercetin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27me3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Glandular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.06
Nr1h3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	26.5461
GSE158197_6_v_10_egfr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
integral component of plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.141888
Insect tracheal system	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.989
H3K27me3_Brain Cingulate Gyrus	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K27me3_H7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ink gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.913
SP1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PSMG4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06909
Tail bud	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.759
Charcot-Marie-Tooth disease type 4F	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.786
Tight junction interactions	Reactome Pathways 2024	1.0	null
head	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057954
LRPPRC	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00264
Syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.37
hsa-miR-548t	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
Duchenne muscular dystrophy (DMD)_Extraocular muscle_GSE1008	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.72858
Lung adenocarcinoma_LUAD_TCGA-05-5428-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC4092039__F1	PFOCR Pathway Figure Associations 2024	1.0	null
POLR2A_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE147876,GSE147877_4_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_H7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MYC_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDAMB175VII	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.14523
PMC6662580__F1	PFOCR Pathway Figure Associations 2024	1.0	null
PMC10679662-mmc2.xlsx-NC-D5-ZEB2-siRNA-Upregulated-Gene_Symbol_ZEB2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE114883_0_v_2_romidepsin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-93-8067-01A-11R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mesendoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.699
Head and Neck squamous cell carcinoma_HNSC_TCGA-QK-A6II-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HDAC2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
posteroventral (inferior) parietal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.60496
GSE200352_11_v_6_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
irf1_17409403_nih3t3_gof_mouse_gpl81_gds2752	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.941295
GSE164757,GSE164759_4_v_0_trametinib_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Cell-Cell communication	Reactome Pathways 2014	1.0	null
Neurilemmoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.093
PMC9692040-mmc1.xlsx-3_SAFB1_IP_significance-T_Gene_names_SAFB	Rummagene Transcription Factor Associations 2026	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-CS-5394-01A-01R-1470-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.852
TBX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.4108
H3K4me1_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE195568_6_v_7_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KM12	CCLE Cell Line Gene Expression Profiles	1.0	1.35859
Prostate adenocarcinoma_PRAD_TCGA-EJ-7328-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
SG in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.15786
protein localization to membrane	GO Biological Process Annotations 2025	1.0	null
hsa-miR-377	TargetScan Predicted Conserved microRNA Targets	1.0	0.175726
PMC2694838-1471-2164-10-241-S2.xls-Sheet1-Regulated_genes_by_ZNF191_knockdown_ZNF24	Rummagene Transcription Factor Associations 2026	1.0	null
cellular_component	COMPARTMENTS Experimental Protein Localization Evidence Scores	1.0	0.233497
GSE206516,GSE206518_3_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Lysosomal HOPS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.694
Apical part of cell	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Lung squamous cell carcinoma_LUSC_TCGA-34-5240-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
runx1_18671852_e8dot5_lof_mouse_gpl1261_gds1511	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.162345
TCF3	ChEA Transcription Factor Targets	1.0	null
PMC4176051__F2	PFOCR Pathway Figure Associations 2023	1.0	null
Microvillus inclusion disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.578
USF2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NR1H2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06358
GSE178714_5_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Allantois	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.589
Basolateral cytoplasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.736
POLR2A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOSB::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.2291
H3K27ac_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RB_P130_DN.V1	MSigDB Signatures of Differentially Expressed Genes for Cancer Gene Perturbations	1.0	null
Retinitis pigmentosa 2	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.694
Apical cytoplasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.7
E2F4	ENCODE Transcription Factor Targets	1.0	null
PMC6321280__F3	PFOCR Pathway Figure Associations 2024	1.0	null
CTCF_LNCaP clone FGC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hepatobiliary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.109
IZ in dorsolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.98024
irinotecan_rattus norvegicus_gpl1355_gds3466	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Rectal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.822
GSE168596_2_v_3_adiponectin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Liver carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.058
amnion	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.375368
positive regulation of cellular component organization	GO Biological Process Annotations 2023	1.0	null
H3K27me3_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC3929326__F6	PFOCR Pathway Figure Associations 2023	1.0	null
plant	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052416
15793299-TableC	GeneSigDB Published Gene Signatures	1.0	null
GATA2_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
tailbud stage	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.829872
GSE245134_0_v_1_atg5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ME-54-JY76_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.271221
Excretory canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.433
E2F4_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H358	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50603
Liver cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.091
Zic3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	33.4972
H3K9ac_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.276
Perturb_14971_KD_Crebbp_SRP154933	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.7263
GTEX-UPK5-1226-SM-4IHL8	GTEx Tissue Sample Gene Expression Profiles	1.0	0.95672
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.16454
transverse gyri, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.859747
SP1	ENCODE Transcription Factor Targets	1.0	null
Midgut epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.641
Outer nuclear layer	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.005
H3K27me3_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE228413_4_v_3_mavs_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hematopoietic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05829
ELF1_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mammalian	GeneRIF Biological Term Annotations	1.0	null
CTCF_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormal pulmonary alveolus wall morphology	MGI Mouse Phenotype Associations 2023	1.0	null
GSE148066,GSE157787_5_v_10_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC5090056__F1	PFOCR Pathway Figure Associations 2023	1.0	null
PANK4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15202
EHMT2_KD_GDS4800_315_human_MDA-MB231	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EX-A449-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ARHGEF39	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06203
magnocellular division of VA	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.19498
MYC_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
division	GeneRIF Biological Term Annotations	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HNF4A_HNF4A	Rummagene Transcription Factor Associations 2026	1.0	null
uterus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056787
Kidney renal clear cell carcinoma_KIRC_TCGA-CW-5585-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mammary duct	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.863
GSE129389_0_v_4_tropifexor_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
TBP	ENCODE Transcription Factor Targets	1.0	null
GSE156115_0_v_3_igf2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_5922_KD_KHDRBS1_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.97785
Lung adenocarcinoma_LUAD_TCGA-95-7944-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Midbody	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.23
dilated renal tubules	MPO Gene-Phenotype Associations	1.0	null
m.dunni	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.743
CHAGOK1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.17834
GSE229973_3_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
MDCK-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.747
abnormal respiratory motile cilium morphology	MPO Gene-Phenotype Associations	1.0	null
H3K4me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TBX5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.747
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A519-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ovary	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.58147
superior occipital gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.29013
beta1	GeneRIF Biological Term Annotations	1.0	null
Nr5a1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	25.4703
PMC5524348-pone.0181667.s005.xlsx-Inflammation-MINT_SPEN	Rummagene Transcription Factor Associations 2026	1.0	null
superior frontal gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.56856
NCIH929	CCLE Cell Line Gene CNV Profiles	1.0	1.5814
PANC1005	DepMap CRISPR Gene Dependency	1.0	2.40765
CTCF_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE195568_1_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
had	GeneRIF Biological Term Annotations	1.0	null
colorectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.503533
TBP_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IM-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K9me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
abnormal digestive system morphology	MPO Gene-Phenotype Associations	1.0	null
GSE202434,GSE202438_13_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Myosin II complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.518
Stratum granulosum cerebelli	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.543
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.01
Ciliary necklace	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.392
Prostate adenocarcinoma_PRAD_TCGA-G9-6362-01A-11R-1789-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE184475_1_v_0_il21_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SLC12A7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05419
Lung adenocarcinoma_LUAD_TCGA-86-A4JF-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HDAC1	ENCODE Transcription Factor Targets	1.0	null
CTCF_lung_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Respiratory system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
H3K27me3_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SLF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00454
VI, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.878834
Fetal Growth Retardation	CTD Gene-Disease Associations	1.0	1.33995
BICDL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40513
Squamous cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.286
GSE116930,GSE116935_3_v_0_hes7_human	RummaGEO Gene Perturbation Signatures	1.0	null
orbital frontal cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.93601
SP4	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-AL-3466-01A-02R-1351-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
vestibular labyrinth	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.221755
layer IIIb of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.01667
NCI-H847	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.15623
GSE231799_3_v_1_nfkbie_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CIART	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00464
precuneus, left, superior lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.877054
H3K27me3_myocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABPA_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE96641_1_v_4_esrp2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ventral tegmental area	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.70639
ear	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.138552
PMC9650879-12957_2022_2823_MOESM5_ESM.xlsx-Sheet1-Table_S5_Pearson_correlation_analysis_between_ZNF71_and_its_putative_target_genes_which_relates_to_Tight_junction_ZNF71	Rummagene Transcription Factor Associations 2026	1.0	null
BDH2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43939
GSE239688_2_v_1_canagliflozin_human	RummaGEO Drug Perturbation Signatures	1.0	null
YIPF6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.74813
CTBP2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_8749_OE_TP53_SRP131095	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
JHOS2	CCLE Cell Line Gene Expression Profiles	1.0	1.34938
abnormal respiratory system physiology	MPO Gene-Phenotype Associations	1.0	null
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.943893
NF-21-HQ00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.679218
ventromedial hypothalamic nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.21732
pituitary	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.01795
amygdaloid complex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.96968
Hep-G2/2.15 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.741
ZBTB7C	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.7899
Epithelial to mesenchymal transition in colorectal cancer	WikiPathways Pathways 2024	1.0	null
Rectal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.895
Digestive gland	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
embryo	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057472
19192944-TableS4	GeneSigDB Published Gene Signatures	1.0	null
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06643
intestinal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.459918
H3K4me3_keratinocyte_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
adrenal_4a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
BHLHE40_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XPVG-2626-SM-4B669	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1056
ME-31-RM40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.458723
posterior group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.30565
leukemia cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.073055
GTEX-TMMY-1626-SM-4DXTY	GTEx Tissue Sample Gene Expression Profiles	1.0	0.865685
H3K4me1_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
RPL37A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.13134
H3K4me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
chitin-based extracellular matrix	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.999
GSE111035,GSE111040_3_v_13_plag1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-A632-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
RAD21_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-78-7540-01A-11R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
hsa-miR-4775	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
PMC6662580__F1	PFOCR Pathway Figure Associations 2023	1.0	null
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.528
inferolateral temporal cortex (area TEv, area 20)_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.827808
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-66-2766-01A-01R-0851-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A704	CCLE Cell Line Gene Expression Profiles	1.0	2.00614
GSE135705_5_v_3_corticosterone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-39-5040-11A-01R-2125-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K4me1_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
single-organism cellular localization	GO Biological Process Annotations 2015	1.0	null
RCOR1_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZBTB7A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-FOXA2_FOXA2	Rummagene Transcription Factor Associations 2026	1.0	null
Setleis syndrome_Skin fibroblast_GSE16524	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-1.53611
KLF4-19030024-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
tight junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.716791
intellectual disability	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.188938
TCF3-18347094-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
mRNA_ZSCAN4C_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
SMC3	ENCODE Transcription Factor Targets	1.0	null
MAFK_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE227592_10_v_3_adar_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.576
Lymphoma_burkitts(Raji)	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.56319
Actomyosin	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.673
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.545
LIAS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.32084
layer V of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.19424
H2AFZ_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney Chromophobe_KICH_TCGA-KO-8415-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RELA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05964
Apical cortex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.301
III, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.963063
GSE96641_5_v_0_esrp2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2AphosphoS5_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE151494_10_v_3_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
apical part of cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
USF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
skeletalmuscle_c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.16949
KLF4	ChEA Transcription Factor Targets	1.0	null
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09301
Tubulobulbar complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.53
H3K4me1_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.45209
Adult Pineoblastoma	DisGeNET Gene-Disease Associations	1.0	null
TAF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FLI1	MotifMap Predicted Transcription Factor Targets	1.0	null
Perturb_1212_KO_Zfp580/Sp1_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.00243
GATA1_G1E-ER4_mm9_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Schmidt-Lanterman incisure	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.079
hsa-miR-590-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
CardiacMyocytes	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.54451
animal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	1.0758
Blastocyst	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.588
B3GALT6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59807
abnormal proximal convoluted tubule brush border morphology	MPO Gene-Phenotype Associations	1.0	null
H3K4me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_13229_OE_Klf5_SRP341620	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.41051
RIC8A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02208
SCC-9	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.24455
H3K27me3_H7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MM1S	CCLE Cell Line Gene CNV Profiles	1.0	1.54295
Cell junction	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
Hic1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.2291
PMC4607655__F3	PFOCR Pathway Figure Associations 2024	1.0	null
layer II of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.11953
PMC6119098__F2	PFOCR Pathway Figure Associations 2023	1.0	null
MYF5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	37.1232
indusium griseum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.883814
GSE199255,GSE199356_3_v_5_pds5a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EP300	ENCODE Transcription Factor Targets	1.0	null
embryonic structure	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.074179
cell-cell junction	GO Cellular Component Annotations 2015	1.0	null
tcf3_21972416_linnegflt3poscd127posly6dneg_bone_marrow_lof_mouse_gpl1261_gse27402	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.044009
TBX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.358
eye	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.485545
cell-cell junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.802021
H3K27me3_cardiac mesoderm_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100362_FWM_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.67983
Leber congenital amaurosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.113
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32167
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Osmotic diarrhea	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.056
PMC9084694-RMB2-21-e12464-s005.xlsx-GV_MI_MII_GV-up-GeneName_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
TLR3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00039
Arp2/3 protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.244
Filtration diaphragm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.957
CTCF_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormal respiratory function	MPO Gene-Phenotype Associations	1.0	null
protein domain specific binding	GO Molecular Function Annotations 2015	1.0	null
GRWD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.41109
EZH2_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7783-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
Renal epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.625
PMC7498599-41467_2020_18508_MOESM11_ESM.xlsx-Mor_CTCF-Unnamed_3_CTCF	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_59_KO_Kdm4a_SRP192379	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.03299
Perturb_5031_KO_4930500J02Rik_SRP072189	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.3306
paracentral lobule, posterior part, right, bank of cingulate sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.993305
ECC10	CCLE Cell Line Gene CNV Profiles	1.0	1.35283
fused small intestinal villi	MGI Mouse Phenotype Associations 2023	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ES-A2HT-01A-12R-A180-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TMEM86A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.31676
ELK1	ENCODE Transcription Factor Targets	1.0	null
vesicle	GO Cellular Component Annotations 2015	1.0	null
estradiol_mus musculus_gpl4134_gse23241	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-MT-A67F-01A-11R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Spindle midzone	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.938
RAD21	ENCODE Transcription Factor Targets	1.0	null
U266B1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.08097
dilated renal tubule	MGI Mouse Phenotype Associations 2023	1.0	null
CTCF_C2C12_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE248770_0_v_1_sorafenib_human	RummaGEO Drug Perturbation Signatures	1.0	null
colorectal adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.518072
GSE57871_11_v_12_vorinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-7747-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CCDC12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.15354
pontine raphe nucleus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.29492
SLC22A5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.99357
GSE112860_3_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HT-29	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23409
GTEX-RM2N-0926-SM-48FD1	GTEx Tissue Sample Gene Expression Profiles	1.0	0.874891
GSE140997_2_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC6119098__F2	PFOCR Pathway Figure Associations 2024	1.0	null
Ciliary transition zone	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.224
SIN3A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KCNF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.60058
ANKRD35	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.10532
Extracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	4.0
HSPD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.28655
localization	GO Biological Process Annotations 2015	1.0	null
inferolateral temporal cortex (area TEv, area 20)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.63945
PMC11502753-41467_2024_53330_MOESM11_ESM.xlsx-Sheet1-SMAD3_target_genes_A549_SMAD3	Rummagene Transcription Factor Associations 2026	1.0	null
anterior orbital gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.49619
SLK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.61452
tail of caudate nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.39329
SW626	DepMap CRISPR Gene Dependency	1.0	5.6497
provide	GeneRIF Biological Term Annotations	1.0	null
GSE114284_4_v_0_irf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE110178_5_v_6_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069439
t62-spleen_male_8w	MoTrPAC Rat Endurance Exercise Training	-1.0	-2.92686
CTCF	ENCODE Transcription Factor Targets	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-S9-A7J3-01A-21R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
T-84 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.123
INKA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.22278
SAP30_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.665
Perturb_5012_Mut_Sall4_ERP122174	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-13.0049
HOXB7-26014856-BT474-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE122215,GSE122217_5_v_4_peg10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.263
basal cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.21883
GATA1_G1E-ER4_mm9_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EC-62-OE64_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.214174
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-GATA3_GATA3	Rummagene Transcription Factor Associations 2026	1.0	null
extracellular vesicle	GO Cellular Component Annotations 2015	1.0	null
small kidney	MGI Mouse Phenotype Associations 2023	1.0	null
GSE218727_2_v_1_zkscan3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
FOS	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.4654
CETN3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59432
Perturb_14972_KO_Max_SRP225905	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	16.0451
primary visual cortex (striate cortex, area V1/17)_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.895079
GSE145249_0_v_2_ppm1g_human	RummaGEO Gene Perturbation Signatures	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ED-A8O6-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF57	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.7483
ELF1_HCT116_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2886-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GABPA_MCF-7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE150669_2_v_1_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
SYCE1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.42195
NUTF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14777
OTX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.205
PRRX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0706
Charcot-Marie-Tooth disease type 4	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.18
colonic adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.523588
ZEB1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9391581-mmc5.xlsx-WT_KLF4_vs_GFP-gene_name_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
occluding junction	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
H3K27me3_NT2-D1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-G9-6499-01A-12R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27me3_Colon Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
MM.1S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.53243
CAMA1	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.70164
Fundus dystrophy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.121
abnormal pulmonary alveolar system morphology	MPO Gene-Phenotype Associations	1.0	null
H3K27me3_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF3-18347094-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
no abnormal phenotype detected	MGI Mouse Phenotype Associations 2023	1.0	null
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
stratum radiatum of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.41491
urinary tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054945
viscus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.072765
H3K27ac_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NCIH1944	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47127
H3K4me1_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
neonatal lethality	MPO Gene-Phenotype Associations	1.0	null
H3K9ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CTCF_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GABP	MotifMap Predicted Transcription Factor Targets	1.0	null
TAL1	ENCODE Transcription Factor Targets	1.0	null
GTF3C2-35216376-H9-HUMAN-BONEMARROW-LYMPHOMA	ChEA Transcription Factor Targets 2022	1.0	null
YY1_HCT116_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Lateral plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.359
CX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23409
Perturb_5323_KD_Hif1a_SRP386119	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-9.85541
PMC11576434-DataSheet1.pdf-18-ASH1L_ASH1L	Rummagene Transcription Factor Associations 2026	1.0	null
central portion of GPi	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.14638
cerebellar cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.925168
plasma membrane part	GO Cellular Component Annotations 2015	1.0	null
skeletal muscle	HPA Tissue Gene Expression Profiles	-1.0	-1.27092
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32167
planum temporale, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.985022
plasma membrane region	GO Cellular Component Annotations 2015	1.0	null
basolateral nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.961718
Liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.077
H3K27me3_cardiac mesoderm_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cytoplasmic microtubule	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.13
abnormal intestinal epithelium morphology	MPO Gene-Phenotype Associations	1.0	null
GSE236262_0_v_3_trim28_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
USF1_SK-N-SH_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE104022_1_v_0_tamoxifen_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Congenital diarrhea 5 with tufting enteropathy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.13
subparafascicular nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.81352
GTEX-XUJ4-1026-SM-4BOPB	GTEx Tissue Sample Gene Expression Profiles	1.0	0.920411
Retinal degeneration	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.748
SUZ12	ChEA Transcription Factor Targets	1.0	null
ZNF354C	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	14.6875
H3K36me3_keratinocyte_hg19_1	ENCODE Transcription Factor Binding 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
cell junction	GO Cellular Component Annotations 2015	1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16977
primary auditory cortex (core)_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.92092
H3K4me1_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
impaired mucociliary clearance	MGI Mouse Phenotype Associations 2023	1.0	null
GSE174701_5_v_6_maml3_human	RummaGEO Gene Perturbation Signatures	1.0	null
SLR23	DepMap CRISPR Gene Dependency	1.0	2.68668
GTEX-T5JW-1326-SM-4DM5G	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06233
Perturb_14558_KD_FOXA1_SRP161699	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.56205
kidney	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056704
PMC7617064-EMS151900-supplement-Extended_Data_Figure_5_Source_Data.xlsx-HSLC_D9_DEG-Logfold_change_threshold_1_0_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
regulation of cell junction assembly	GO Biological Process Annotations 2025	1.0	null
Triple Negative Breast Neoplasms	DisGeNET Gene-Disease Associations	1.0	null
GATA1_G1E-ER4_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dorsomedial hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.923485
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
plasma membrane organization	GO Biological Process Annotations 2015	1.0	null
H3K27ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
FOS::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.5648
GSE184902_4_v_0_adipor1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
P300-27268052-CHIP-SEQ-BCELLS-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
preweaning lethality, complete penetrance	MGI Mouse Phenotype Associations 2023	1.0	null
ESR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.8618
HMGN3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mucosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056442
Bile canaliculus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.784
GSE169617_1_v_2_azacitidine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HT	CCLE Cell Line Gene CNV Profiles	1.0	1.83331
TAL1_megakaryocyte_mm9_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
positive regulation of cell junction assembly	GO Biological Process Annotations 2025	1.0	null
protein localization	GO Biological Process Annotations 2015	1.0	null
GTEX-WHSB-1326-SM-3LK6W	GTEx Tissue Sample Gene Expression Profiles	1.0	0.851946
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.379499
MAX	JASPAR Predicted Transcription Factor Targets	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7325-01B-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cell-cell adherens junction	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.460401
POLR2AphosphoS5_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.885793
morg1	GeneRIF Biological Term Annotations	1.0	null
GSE231648_1_v_2_lsm14b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RSL1D1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27995
Weight Loss	CTD Gene-Disease Associations	1.0	1.10562
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Ectoplasm	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.337
GATA1_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC8481886-Table_2.xlsx-A_subsets-AF_MSC_UdRPC_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
ANKRD30A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23859
COLO 794	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.82733
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE118077_7_v_2_sprr5_human	RummaGEO Gene Perturbation Signatures	1.0	null
RCOR1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Mpf	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.63
GSE178714_5_v_7_smad2_human	RummaGEO Gene Perturbation Signatures	1.0	null
extracellular vesicular exosome	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.237908
PMC9794594-DataSheet_1.xlsx-ST12-Unnamed_1_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
abnormal lung epithelium morphology	MGI Mouse Phenotype Associations 2023	1.0	null
GSE122215,GSE122217_0_v_4_peg10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC4092039__F1	PFOCR Pathway Figure Associations 2023	1.0	null
Apical plasma membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.873
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
PMC5090056__F1	PFOCR Pathway Figure Associations 2024	1.0	null
ChIP_TCF3_18347094	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Hypodermal seam cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.588
blood	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057658
Myelinating Schwann cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.227
16488994-SuppTable1b	GeneSigDB Published Gene Signatures	1.0	null
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.943893
DLD-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09543
cingulate gyrus, parietal part, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.842761
EZH2_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventrolateral prefrontal cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.851211
POLR2A_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE145476_2_v_0_hopx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205976,GSE205978_2_v_5_cep83_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-U3ZN-1726-SM-4DXUQ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.859517
Inflammation	CTD Gene-Disease Associations	1.0	1.02447
H3K4me3_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
ZBTB7A_ECC-1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC4387713-supp_gad.255984.114_Table_S5.xlsx-S5E-Down_H3K27me3_DPY30_KD-Unnamed_12_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-58-8387-01A-11R-2296-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC8140076-41467_2021_23294_MOESM3_ESM.xlsx-Gut_Tube-CDX2_CDX2	Rummagene Transcription Factor Associations 2026	1.0	null
JUND_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
smallintestine	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.63308
superficial layers of caudal presubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.06807
CTBP2	ENCODE Transcription Factor Targets	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A4IQ-01A-12R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mesaxon	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.95
H3K4me3_HEK293_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SNAI3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3473
Kidney Chromophobe_KICH_TCGA-KN-8433-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kinocilium	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.707
Kibra-Ex-Mer complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.562
GATA2_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-RU1J-0326-SM-46MUM	GTEx Tissue Sample Gene Expression Profiles	1.0	1.04334
POLR2A_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PHF8	ENCODE Transcription Factor Targets	1.0	null
NELFE_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AA-22-UI44_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.275979
PMC6436215-13073_2019_626_MOESM2_ESM.xlsx-PCM-NFKB1_NFKB1	Rummagene Transcription Factor Associations 2026	1.0	null
membrane-bounded vesicle	GO Cellular Component Annotations 2015	1.0	null
GSE111247_14_v_4_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE102675_3_v_0_atf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE120413,GSE120447_0_v_2_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-AK-3451-01A-02R-1188-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-39-5037-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GATA1_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney Chromophobe_KICH_TCGA-KO-8404-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	-1.0	null
abnormal pulmonary alveolus morphology	MGI Mouse Phenotype Associations 2023	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-S9-A6WD-01A-12R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC3929326__F6	PFOCR Pathway Figure Associations 2024	1.0	null
GSE239688_4_v_0_canagliflozin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
par6apkc	GeneRIF Biological Term Annotations	1.0	null
primary motor cortex (area M1, area 4)_1 yrs_F_12830	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.96968
NELFE	ENCODE Transcription Factor Targets	1.0	null
abnormal breathing pattern	MPO Gene-Phenotype Associations	1.0	null
H3K27me3_CD3 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
ATF3	ENCODE Transcription Factor Targets	1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-KLF4_Targets_Enrichment-Unnamed_127_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
Rarg	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	66.2224
TAL1::TCF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.3182
H3K4me3_GM06990_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Photoreceptor inner segment	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.905
abnormal pulmonary alveolus morphology	MPO Gene-Phenotype Associations	1.0	null
TEAD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC9098426-41540_2022_225_MOESM4_ESM.xls-HCT116_NR1D1_KO-Gene_NR1D1	Rummagene Transcription Factor Associations 2026	1.0	null
Pigmented paravenous chorioretinal atrophy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.368
cerebellar cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.01158
extracellular organelle	GO Cellular Component Annotations 2015	1.0	null
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.868417
GSE149903_5_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K79me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE126762_1_v_0_klf15_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE112761,GSE112767_2_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE176008_7_v_2_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
FAM98B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.38462
DDX21	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.09039
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-5887-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
19605494-TableS3	GeneSigDB Published Gene Signatures	1.0	null
GSE140997_10_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE169155_5_v_4_acetaminophen_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE111247_14_v_13_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE206516,GSE206518_5_v_4_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_10397_KD_LOXL2_SRP217697	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
inner CP in subgenual (subcallosal) cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.913113
H3K27ac_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Intraciliary transport particle B	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.778
SPI1	ENCODE Transcription Factor Targets	1.0	null
Neuro D	MotifMap Predicted Transcription Factor Targets	1.0	null
bud	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.286381
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Columnar cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.392
H3K4me1_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-TN-A7HL-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
sucrase-isomaltase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.997
Brain - Nucleus accumbens (basal ganglia)	GTEx Tissue Gene Expression Profiles 2023	1.0	1.36512
GTEX-QLQ7-0926-SM-447BC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.877674
HN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42335
cytoplasmic dynein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.54936
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	-1.00105
GTEX-XOTO-2126-SM-4B64U	GTEx Tissue Sample Gene Expression Profiles	1.0	1.04695
GSE120370_0_v_6_thrombin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null