association	dataset	threshold value	standardized value
CTCF_medulloblastoma_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NR4A2::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.8509
regulation of cell communication	GO Biological Process Annotations 2015	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
BJ cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.721
TFAP2D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.258
Prostate adenocarcinoma_PRAD_TCGA-VP-A872-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mitochondrial degradosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.016
positive regulation of signaling	GO Biological Process Annotations 2015	1.0	null
SCLC-22H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84271
Prostate gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
made	GeneRIF Biological Term Annotations	1.0	null
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.58043
Cerebellar ataxia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.724
regulation of viral-induced cytoplasmic pattern recognition receptor signaling pathway	GO Biological Process Annotations 2015	1.0	null
SU-DHL-6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.981473
regulation of cell population proliferation	GO Biological Process Annotations 2023	1.0	null
P31-FUJ	COSMIC Cell Line Gene Mutation Profiles	1.0	null
LOX-IMVI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.987845
NCI-H209	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
GSE142210_4_v_6_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE157282_0_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	1.0	null
cytokineinducible	GeneRIF Biological Term Annotations	1.0	null
understanding	GeneRIF Biological Term Annotations	1.0	null
Solid Neoplasm	DisGeNET Gene-Phenotype Associations	1.0	null
hematopoietic cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.058552
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
496100370_PCx_probable Alzheimer's disease_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.55153
protein modification process	GO Biological Process Annotations 2015	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A29W-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
dubs	GeneRIF Biological Term Annotations	1.0	null
negative regulation of protein metabolic process	GO Biological Process Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-E1-A7YQ-01A-11R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
OV-90	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.908689
Clear cell renal cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.073
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-4101-01A-02R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
lymphoid cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.085279
CHTOP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24802
Viral infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.043
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Cervical adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.312
biological_process	GO Biological Process Annotations 2015	1.0	null
NCI-H889	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42981
promoting	GeneRIF Biological Term Annotations	1.0	null
pre-replicative complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.688
LRRC37B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.34137
regulation of protein processing	GO Biological Process Annotations 2015	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1Z7-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of G2/MI transition of meiotic cell cycle	GO Biological Process Annotations 2023	1.0	null
Hepatobiliary disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.42
HDAC6	ENCODE Transcription Factor Targets	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-IB-A7LX-01A-12R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H2126	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
GSE239898,GSE239899_1_v_0_hiltonol_human	RummaGEO Drug Perturbation Signatures	1.0	null
negative regulation of GTPase activity	GO Biological Process Annotations 2023	1.0	null
regulation of proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
dub1	GeneRIF Biological Term Annotations	1.0	null
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.32926
lymphocytes	GeneRIF Biological Term Annotations	1.0	null
Glucocorticoid Receptor Deficiency	DisGeNET Gene-Disease Associations	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-7472-01A-11R-2027-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.616
H2AFX	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-P5-A5F0-01A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
PMC8225676-41467_2021_24150_MOESM4_ESM.xlsx-DUB_ranking_siRNA_screening-DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A3MI-01A-11R-A20F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
protein binding	GO Molecular Function Annotations 2015	1.0	null
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.026
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A1EE-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DGCR6L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.84243
GSE206516,GSE206518_1_v_7_ptdss2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
membrane region	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.008503
regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
GAS2L1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.91852
nuclear outer membrane-endoplasmic reticulum membrane network	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Fanconi anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.188
hippocampus	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
regulation of defense response to virus	GO Biological Process Annotations 2015	1.0	null
496100663_TCx_no dementia_no TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.03344
H-1299	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.744
Hepatobiliary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.475
Kidney renal papillary cell carcinoma_KIRP_TCGA-MH-A856-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.54
Foreskin fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.696
Hs-578T cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.802
progress	GeneRIF Biological Term Annotations	1.0	null
Non-Small Cell Lung Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
Glioblastoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.329
Brain Lower Grade Glioma_LGG_TCGA-DU-8161-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC7426525-fonc-10-01289.nxml--DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
positive regulation of GTPase activity	GO Biological Process Annotations 2025	1.0	null
Congenital muscular dystrophy 1B	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.463
DCTN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68075
ZNF341	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6309
physiological	GeneRIF Biological Term Annotations	1.0	null
negative regulation of histone modification	GO Biological Process Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7327-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A1AB-01A-11R-A13Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Uterine adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.513
Renal cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.103
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-C5-A7CK-01A-11R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BRCA1-BARD1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.152
urinary bladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
CX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81603
positive regulation of RIG-I signaling pathway	GO Biological Process Annotations 2023	1.0	null
negative regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.009
proteasome-mediated ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Mouth disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.079
COP9 signalosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.475
RH41	CCLE Cell Line Gene CNV Profiles	1.0	1.62297
intracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
NR2F1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	66.268
Connective tissue disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.162
Breast Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
METTL25	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.36561
Liver hepatocellular carcinoma_LIHC_TCGA-ZP-A9D1-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC6187090-mmc1.xlsx-TP53_positive-Symbol_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
h2ax	GeneRIF Biological Term Annotations	1.0	null
Lung adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.365
Pancreatic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.377
SUM cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.673
TTC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.35869
CBX8	ENCODE Transcription Factor Targets	1.0	null
regulation of protein modification process	GO Biological Process Annotations 2015	1.0	null
KARPAS-620	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14778
Esophageal squamous cell carcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.167
NCIH2081	CCLE Cell Line Gene CNV Profiles	1.0	2.09761
negative regulation of intracellular transport	GO Biological Process Annotations 2015	1.0	null
Rectum adenocarcinoma_READ_TCGA-AG-3732-01A-11R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.736
CD83	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.7158
Lung cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.78
Prostate adenocarcinoma_PRAD_TCGA-VN-A88O-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.881
T-47D cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.078
lymphoid cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062728
protein modification by small protein removal	GO Biological Process Annotations 2023	1.0	null
Endometriosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.193
Prostate adenocarcinoma_PRAD_TCGA-HC-8258-11A-01R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Signal Transduction	Reactome Pathways 2024	1.0	null
Lung adenocarcinoma_LUAD_TCGA-64-5779-01A-01R-1628-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Neoplasm Metastasis	DisGeNET Gene-Phenotype Associations	1.0	null
SUM 52PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.07935
hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
cullin-RING ubiquitin ligase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.663
Brain Lower Grade Glioma_LGG_TCGA-FN-7833-01A-11R-2090-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Amylin receptor complex 2	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.797
malignant glioma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.226262
membrane region	GO Cellular Component Annotations 2015	1.0	null
GSE163240_2_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
L3MBTL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.2108
Obesity	DisGeNET Gene-Disease Associations	1.0	null
Brain disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.376
negative regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-6980-11A-01R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-IA-A83V-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-HV-A5A3-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cellular component biogenesis	GO Biological Process Annotations 2015	1.0	null
GREB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.80087
positive regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GC-A6I3-11A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
positive regulation of GTPase activity	GO Biological Process Annotations 2023	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-A6S6-01A-21R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.15184
KYSE-450	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23133
ubiquitinyl hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
GSE205163,GSE205164_9_v_4_znf808_human	RummaGEO Gene Perturbation Signatures	1.0	null
CREM	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.4858
MIA-PACA-2	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Leukocyte disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.409
Childhood Solid Neoplasm	DisGeNET Gene-Phenotype Associations	1.0	null
GSE181461_1_v_4_trim28_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_17802_KO_ZNF675_SRP305529	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.49632
GSE163240_3_v_4_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Oviduct	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
PMC12081856-41420_2025_2522_MOESM6_ESM.xlsx-Sheet_1-Table_S4_Complete_Gene_List_of_the_MEblack_Gene_Module_and_the_DUB_Family_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Lung non-small cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.816
Prostate adenocarcinoma_PRAD_TCGA-VP-A87B-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lupus Erythematosus	DisGeNET Gene-Disease Associations	1.0	null
regulation of plasma membrane bounded cell projection assembly	GO Biological Process Annotations 2025	1.0	null
WM793B	COSMIC Cell Line Gene Mutation Profiles	1.0	null
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.988651
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.776
METTL24	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.52162
GSE202434,GSE202438_2_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	58.7127
Liver hepatocellular carcinoma_LIHC_TCGA-MR-A8JO-01A-12R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC9225015-elife-72879-supp1.xlsx-DUB_CRISPR_library-Unnamed_3_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-7902-01A-12R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE116930,GSE116935_1_v_6_hes7_human	RummaGEO Gene Perturbation Signatures	-1.0	null
regulation of cell projection organization	GO Biological Process Annotations 2015	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CQ-6218-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.151
regulation of meiotic cell cycle phase transition	GO Biological Process Annotations 2023	1.0	null
NCIH2023	CCLE Cell Line Gene CNV Profiles	1.0	1.63669
negative regulation of protein targeting to membrane	GO Biological Process Annotations 2023	1.0	null
genomes	GeneRIF Biological Term Annotations	1.0	null
primary metabolic process	GO Biological Process Annotations 2015	1.0	null
KYSE-30 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.782
PMC4804643-13014_2016_623_MOESM2_ESM.xlsx-MI_GENES-ID_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
MV-4-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.963659
Ovary epithelial cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.177
SW756	COSMIC Cell Line Gene Mutation Profiles	1.0	null
component	GeneRIF Biological Term Annotations	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-YL-A8HK-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CR-7379-01A-11R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of mda-5 signaling pathway	GO Biological Process Annotations 2015	1.0	null
regulation of RIG-I signaling pathway	GO Biological Process Annotations 2023	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-F7-A623-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7330-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TCMK-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.222
Kidney Chromophobe_KICH_TCGA-KL-8328-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ubiquitin specific protease domain	InterPro Predicted Protein Domain Annotations	1.0	null
PMC8586238-41467_2021_26788_MOESM6_ESM.xlsx-S2A_CDE_genes-S2A_CDE_-_genes_of_the_two_CCD_genes_RUNX2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE163240_3_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-GF-A769-01A-32R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SNU-C5	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-CU-A3KJ-01A-11R-A21D-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
negative regulation of protein localization to membrane	GO Biological Process Annotations 2025	1.0	null
RUNX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.8413
FOSL2::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.9156
Organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
negative regulation of establishment of protein localization	GO Biological Process Annotations 2025	1.0	null
negative regulation of intracellular protein transport	GO Biological Process Annotations 2015	1.0	null
RNF5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.69054
regulation of protein deacetylation	GO Biological Process Annotations 2015	1.0	null
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.76634
Multiple myeloma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.555
NCIH2452	CCLE Cell Line Gene CNV Profiles	-1.0	-1.388
Brain Lower Grade Glioma_LGG_TCGA-HT-7693-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-5633-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.17558
Neuroblastoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.178
nucleus	GO Cellular Component Annotations 2025	1.0	null
regulation of cell proliferation	GO Biological Process Annotations 2015	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-H6-A45N-11A-12R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE229973_4_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Mesothelioma_MESO_TCGA-LK-A4NY-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
counteracts	GeneRIF Biological Term Annotations	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B4-5832-01A-11R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
copy	GeneRIF Biological Term Annotations	1.0	null
lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.089734
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
embryonic fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.501574
Pheochromocytoma and Paraganglioma_PCPG_TCGA-W2-A7UY-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.45209
Bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
regulation of rig-i signaling pathway	GO Biological Process Annotations 2015	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A70I-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4342-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of defense response to virus by host	GO Biological Process Annotations 2015	1.0	null
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.737
REST_01_211	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.6264
CPTP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.60589
functions	GeneRIF Biological Term Annotations	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-5636-01A-02R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF547	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4416
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-4620-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7125-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Deubiquitination	Reactome Pathways 2024	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	-2.02157
MYCN-19997598-NEUROBLASTOMA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
PMC8554124-DataSheet2.XLSX-4-RORA_RORA	Rummagene Transcription Factor Associations 2026	1.0	null
Lung adenocarcinoma_LUAD_TCGA-97-7553-01A-21R-2039-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of proteolysis	GO Biological Process Annotations 2015	1.0	null
HDAC6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
496100296_PCx_possible Alzheimer's disease_TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.5533
Mesothelioma_MESO_TCGA-MQ-A4KX-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
blood	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.057899
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1373
Neurodegenerative disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.419
Brain Lower Grade Glioma_LGG_TCGA-TM-A84G-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney Chromophobe_KICH_TCGA-KM-8476-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
QSOX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34031
BA/F3 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.75
positive regulation of defense response	GO Biological Process Annotations 2015	1.0	null
negative regulation of organelle organization	GO Biological Process Annotations 2015	1.0	null
protein deubiquitination	GO Biological Process Annotations 2023	1.0	null
CRYGD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.59063
Lung adenocarcinoma_LUAD_TCGA-55-A48X-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCIH854	CCLE Cell Line Gene CNV Profiles	1.0	1.33197
negative regulation of mitotic cell cycle	GO Biological Process Annotations 2015	1.0	null
negative regulation of cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
Gall bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
LNCaP-C4-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.692
Acute Myeloid Leukemia_LAML_TCGA-AB-2972-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
burkitt lymphoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.444884
Ino80 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.905
endoplasmic reticulum membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
MITF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.574
PMC7165618-IUB-62-140.nxml--DUB_name_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7785-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Exosome (RNase complex)	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.699
Lung adenocarcinoma_LUAD_TCGA-50-8459-01A-11R-2326-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
protein K63-linked deubiquitination	GO Biological Process Annotations 2025	1.0	null
being	GeneRIF Biological Term Annotations	1.0	null
identifies	GeneRIF Biological Term Annotations	1.0	null
NCI-H378	COSMIC Cell Line Gene Mutation Profiles	1.0	null
496100347_PCx_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.26518
Endoplasmic reticulum membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
PIGQ	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.81825
ligases	GeneRIF Biological Term Annotations	1.0	null
18614019-TableS4c	GeneSigDB Published Gene Signatures	1.0	null
negative regulation of molecular function	GO Biological Process Annotations 2015	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A6M3-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
raji cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.742564
cysteine-type peptidase activity	GO Molecular Function Annotations 2025	1.0	null
RCHACV	CCLE Cell Line Gene CNV Profiles	1.0	1.34138
FOS::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.9587
negative regulation of hydrolase activity	GO Biological Process Annotations 2023	1.0	null
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.5817
negative regulation of gtpase activity	GO Biological Process Annotations 2015	1.0	null
C32	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.982241
USP17L7	Pathway Commons Protein-Protein Interactions	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
KP-N-YN	COSMIC Cell Line Gene Mutation Profiles	1.0	null
regulation of establishment of protein localization	GO Biological Process Annotations 2015	1.0	null
Female reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.718
MYB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.7944
RXRA::VDR	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.5
NACAP1	Pathway Commons Protein-Protein Interactions	1.0	null
RAC3-21632823-H3396-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Lymphatic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.385
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A113-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
High grade glioma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.34
Esophagus - Muscularis	GTEx Tissue Gene Expression Profiles 2023	1.0	3.00077
PBRM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62681
OCI-AML2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.881205
COX7A2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40733
Osteosarcoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.196
negative regulation of protein targeting to membrane	GO Biological Process Annotations 2025	1.0	null
Perturb_13927_OE_ESRRG_SRP363188	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.73798
dub3usp17	GeneRIF Biological Term Annotations	1.0	null
regulation of localization	GO Biological Process Annotations 2015	1.0	null
cell death	GO Biological Process Annotations 2015	1.0	null
negative regulation of biological process	GO Biological Process Annotations 2015	1.0	null
PMC9574515-mmc2.xls-THP1_0_min_GM-CSF-Target_Gene_Symbol_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
Lung carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.836
SCRT1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.6855
burkitt lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.448346
Urinary tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
BACH2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	57.8128
SNU-C5	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.851
organelle part	GO Cellular Component Annotations 2015	1.0	null
RHOB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.92174
negative regulation of proteolysis	GO Biological Process Annotations 2025	1.0	null
PMC2809080-1471-2164-10-637.nxml--Missing_DUB_Genes_Protein_in_Zebrafish_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Urinary system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Endocrine gland cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.588
PMC10754134-ADVS-10-2303807.nxml--DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
cytokines	GeneRIF Biological Term Annotations	1.0	null
Uterine cervix	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Rectum adenocarcinoma_READ_TCGA-AH-6547-01A-11R-1830-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-GL-A9DE-11A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2MU-06A-21R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A7M6-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.392
regulation of biological process	GO Biological Process Annotations 2015	1.0	null
18614019-TableS4d	GeneSigDB Published Gene Signatures	1.0	null
NFATC2IP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62147
SW403	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42103
CYBRD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.58902
regulation of MDA-5 signaling pathway	GO Biological Process Annotations 2023	1.0	null
Stomach cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.372
Intracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EA-A410-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ovarian Neoplasm	DisGeNET Gene-Disease Associations	1.0	null
ZNF274	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	69.1255
Breast carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.272
HLC1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.84763
Bladder Urothelial Carcinoma_BLCA_TCGA-GV-A3JV-01A-11R-A220-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Proteasome core complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.337
Pheochromocytoma and Paraganglioma_PCPG_TCGA-P7-A5NX-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4706-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BL73 (CLSPN)	NURSA Protein Complexes	1.0	null
CAL-148	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02959
496100369_PCx_no dementia_TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.34604
regulation of protein processing	GO Biological Process Annotations 2025	1.0	null
negative regulation of hydrolase activity	GO Biological Process Annotations 2025	1.0	null
BT-20	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32763
Cerebellar disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.703
Brain Lower Grade Glioma_LGG_TCGA-HT-8011-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Lung squamous cell carcinoma_LUSC_TCGA-77-8131-01A-11R-2247-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Oral cavity cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.206
cellular_component	GO Cellular Component Annotations 2015	1.0	null
G292CLONEA141B1	CCLE Cell Line Gene CNV Profiles	1.0	2.18581
protein deubiquitination	GO Biological Process Annotations 2025	1.0	null
regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
PMC10746608-427_2023_709_MOESM5_ESM.xlsx-KLF4_partners-KLF4_known_protein_partners_according_to_BioGrid_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
positive regulation of gtpase activity	GO Biological Process Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-A6S2-01A-21R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EX-A3L1-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
H3K27me3_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Coronary atherosclerotic plaque	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.777
Lung adenocarcinoma_LUAD_TCGA-55-7913-01B-11R-2241-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
negative regulation of GTPase activity	GO Biological Process Annotations 2025	1.0	null
Cervix disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.39
OCI-LY-10	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12093
Lung adenocarcinoma_LUAD_TCGA-50-5932-11A-01R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF669	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	42.835
GSE235066_7_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
intracellular organelle part	GO Cellular Component Annotations 2015	1.0	null
Retinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.002
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2032
regulation of cell motility	GO Biological Process Annotations 2025	1.0	null
Protein kinase CK2 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.302
regulation of cell cycle	GO Biological Process Annotations 2015	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-ED-A97K-01A-21R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
CPNE2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.46492
Connective tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
TOV-112D	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.858487
Mesothelioma_MESO_TCGA-LK-A4O6-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DB-A4XA-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-V1-A8WN-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Interferon regulatory factor 7 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.582
CDK5RAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.78478
regulation of hydrolase activity	GO Biological Process Annotations 2015	1.0	null
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.485
Cervical carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.233
Liver hepatocellular carcinoma_LIHC_TCGA-BC-4073-01B-02R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	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
regulation of cellular protein localization	GO Biological Process Annotations 2015	1.0	null
like	GeneRIF Biological Term Annotations	1.0	null
NCI-H292	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05515
cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
nucleus	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
cell cycle process	GO Biological Process Annotations 2015	1.0	null
DHFR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.73829
positive regulation of immune effector process	GO Biological Process Annotations 2025	1.0	null
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.872647
GSE207611,GSE207612_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
RERF-LC-KJ	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.57106
PMC8329168-41418_2021_763_MOESM8_ESM.docx-0-DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
ZYG11B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.48016
BDCM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47424
Lung adenocarcinoma_LUAD_TCGA-86-A4P8-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Endoplasmic reticulum	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
NCIH2141	CCLE Cell Line Gene CNV Profiles	1.0	1.69724
peptidase activity	GO Molecular Function Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-4891-01A-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
protein modification by small protein removal	GO Biological Process Annotations 2025	1.0	null
Amylin receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.683
Mammary gland tumor cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.287
CMK	COSMIC Cell Line Gene Mutation Profiles	1.0	null
BL2587 (NCOR2)	NURSA Protein Complexes	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2821-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	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
OCI-M2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.20236
NCI-H838 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.507
nucleus	GO Cellular Component Annotations 2023	1.0	null
PLXNB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.92823
496100351_FWM_no dementia_TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.30199
ZNF502	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.71715
protein processing	GO Biological Process Annotations 2015	1.0	null
Epididymis	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Head and Neck squamous cell carcinoma_HNSC_TCGA-BB-7863-01A-11R-2232-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ARNT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.2667
fibroblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.092474
496100294_HIP_possible Alzheimer's disease_TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.55329
Sarcoma_SARC_TCGA-K1-A42X-02A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-D3-A2JC-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KURAMOCHI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.44982
GSE182185_0_v_1_pstk_human	RummaGEO Gene Perturbation Signatures	1.0	null
MT-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02999
MAP7D1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.88292
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7252-01A-11R-2016-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Myeloid neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.497
MAPK family signaling cascades	Reactome Pathways 2024	1.0	null
embryonic stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.54217
PBX3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of signaling	GO Biological Process Annotations 2015	1.0	null
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.26824
MEIS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	36.7881
SAGA-type complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.165
Kidney renal clear cell carcinoma_KIRC_TCGA-CW-6088-11A-01R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cellular protein modification process	GO Biological Process Annotations 2015	1.0	null
cellular macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
CTCF_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
induced	GeneRIF Biological Term Annotations	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-NK-A5D1-01A-11R-A26W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Endometrial cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.103
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4351-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC70	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Renal carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.147
Oral squamous cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.222
parathyroid gland	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
GSE233679_12_v_2_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18347
endoplasmic reticulum part	GO Cellular Component Annotations 2015	1.0	null
cerebral cortex	HPA Tissue Protein Expression Profiles	-1.0	-0.903885
NCI-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.942885
CDK17	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.825
Mesothelioma_MESO_TCGA-MQ-A6BS-01A-12R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.053
Lumenal side of membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.538
MAFF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.6678
PMC5578490-pgen.1006879.s017.xlsx-Top_ETV1_downregulated_genes-Gene_Symbol_ETV1	Rummagene Transcription Factor Associations 2026	1.0	null
protein K63-linked deubiquitination	GO Biological Process Annotations 2023	1.0	null
regulation of cellular localization	GO Biological Process Annotations 2015	1.0	null
SARC9371	COSMIC Cell Line Gene Mutation Profiles	1.0	null
496100376_FWM_probable Alzheimer's disease_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.54721
RBBP5	ENCODE Transcription Factor Targets	1.0	null
SBC-5	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
bounding membrane of organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.002908
Acute Myeloid Leukemia_LAML_TCGA-AB-2879-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma_LUAD_TCGA-67-3770-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-IQ-7632-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CD164L2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.04168
Malignant astrocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.326
nucleus	GO Cellular Component Annotations 2015	1.0	null
regulation of protein localization	GO Biological Process Annotations 2015	1.0	null
positive regulation of intracellular signal transduction	GO Biological Process Annotations 2015	1.0	null
Female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.739
machinery	GeneRIF Biological Term Annotations	1.0	null
BACH1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7629
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2MG-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
positive regulation of catalytic activity	GO Biological Process Annotations 2015	1.0	null
SMAD5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.6003
CHD7_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Tumor Progression	DisGeNET Gene-Phenotype Associations	1.0	null
negative regulation of protein processing	GO Biological Process Annotations 2025	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-J4-A83K-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H1092	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.19982
Brain Lower Grade Glioma_LGG_TCGA-QH-A6CX-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SKM-1	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7434-01A-11R-2132-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.02925
Cytoplasmic exosome (RNase complex)	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.706
GSE229973_4_v_7_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
PITX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.81416
protein catabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H650	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Skin Cutaneous Melanoma_SKCM_TCGA-FR-A729-06A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of G2/MI transition of meiotic cell cycle	GO Biological Process Annotations 2025	1.0	null
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.087
embryonic fibroblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.147246
PMC11148097-41698_2024_569_MOESM2_ESM.pdf-223-IRF3_IRF3	Rummagene Transcription Factor Associations 2026	1.0	null
Bronchogenic carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.686
Pheochromocytoma and Paraganglioma_PCPG_TCGA-S7-A7WQ-01A-12R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RL	COSMIC Cell Line Gene Mutation Profiles	1.0	null
macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
CAAX-box protein processing	GO Biological Process Annotations 2025	1.0	null
Bone disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.039
THAP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.7665
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1YW-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC3944256-cddis201440x1.xls-Primary_Screen_Results-Supplementary_Table_1_Synthetic-Lethal_siRNA_DUB_Screen_for_Mcl1_antagonists_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE210662_2_v_1_znf165_human	RummaGEO Gene Perturbation Signatures	1.0	null
TBX18	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.8877
cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
Bladder disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.091
USP17L28	Pathway Commons Protein-Protein Interactions	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-KT-A7W1-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Ocular cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.114
GNAS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.20104
Head and Neck squamous cell carcinoma_HNSC_TCGA-QK-A6IH-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TNNT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.6236
GSE188570,GSE188571_3_v_4_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Nerve - Tibial	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
KANSL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.66098
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
RARG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.9467
Kidney renal papillary cell carcinoma_KIRP_TCGA-IA-A83W-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H929	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.935314
EN	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.673
TMEM98	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24459
block	GeneRIF Biological Term Annotations	1.0	null
regulation of signal transduction	GO Biological Process Annotations 2015	1.0	null
connective tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.0596
496100358_HIP_no dementia_TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.55043
NME6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.90787
much	GeneRIF Biological Term Annotations	1.0	null
SCLC21H	CCLE Cell Line Gene CNV Profiles	1.0	1.66546
Malignant Tumor Of Colon	DisGeNET Gene-Disease Associations	1.0	null
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
Brain - Hypothalamus	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
Brain Lower Grade Glioma_LGG_TCGA-CS-6668-01A-11R-1896-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TIA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.42744
MOLT-4	COSMIC Cell Line Gene Mutation Profiles	1.0	null
regulation of immune system process	GO Biological Process Annotations 2015	1.0	null
Ub-specific processing proteases	Reactome Pathways 2024	1.0	null
KP3	CCLE Cell Line Gene CNV Profiles	-1.0	-2.29229
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.966
PMC4804643-13014_2016_623_MOESM2_ESM.xlsx-Gene_List-MI_genes_MITF	Rummagene Transcription Factor Associations 2026	1.0	null
FGD5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.96266
GSE187006_0_v_1_valproic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H838	COSMIC Cell Line Gene Mutation Profiles	1.0	null
catalytic activity	GO Molecular Function Annotations 2015	1.0	null
constitutively	GeneRIF Biological Term Annotations	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A46G-01A-31R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
negative regulation of protein maturation	GO Biological Process Annotations 2023	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A70Q-01A-13R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE71468,GSE76476_0_v_1_rbfox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
regulation of chromosome organization	GO Biological Process Annotations 2015	1.0	null
Golgi cisterna membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.614
PHLPP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.8616
SUZ12_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PBX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.8097
TAF1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.354
NCI-H345	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.47234
Nuclear outer membrane-endoplasmic reticulum membrane network	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.863
Kidney renal clear cell carcinoma_KIRC_TCGA-DV-A4W0-05A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.429
Acute promyelocytic leukemia cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.693
Brain Lower Grade Glioma_LGG_TCGA-TM-A84C-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ovary	GTEx Tissue Gene Expression Profiles	1.0	1.32596
regulation of ruffle assembly	GO Biological Process Annotations 2015	1.0	null
positive regulation of cell communication	GO Biological Process Annotations 2015	1.0	null
negative regulation of protein modification process	GO Biological Process Annotations 2015	1.0	null
Organelle subcompartment	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
dub	GeneRIF Biological Term Annotations	1.0	null
PSMG3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.2836
Lung adenocarcinoma_LUAD_TCGA-50-8457-01A-11R-2326-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
glioblastoma multiforme	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.390025
CTCF_GM13977_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 940.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.26057
CBM complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.596
NR2F6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.2568
hydrolase	GeneRIF Biological Term Annotations	1.0	null
protein deubiquitination	GO Biological Process Annotations 2015	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2807-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cellular macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-A54D-01A-21R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
positive regulation of hydrolase activity	GO Biological Process Annotations 2025	1.0	null
GSE158320,GSE183351_2_v_1_lin28b_human	RummaGEO Gene Perturbation Signatures	1.0	null
MOLM13	CCLE Cell Line Gene CNV Profiles	1.0	3.22632
positive regulation of response to stimulus	GO Biological Process Annotations 2015	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-NA-A4R1-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCIH209	CCLE Cell Line Gene CNV Profiles	1.0	1.43953
Site of double-strand break	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.126
Bladder Urothelial Carcinoma_BLCA_TCGA-DK-A3WX-01A-22R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-F7-A50J-01A-21R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Sarcoma_SARC_TCGA-SI-AA8C-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Intestinal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.542
GSE213611_1_v_0_nuf2_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC9574515-mmc1.xls-THP1_0_min_GM-CSF-Target_Gene_Symbol_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
HEK-293T cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.673
Genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.34
KBM-5 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.644
Machado-Joseph disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.12
negative regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-A4MY-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SCRT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.8368
DCP1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.22866
chr8_12140173_C_A_b38	GTEx eQTL 2025	1.0	1.09517
negative regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
ATP6AP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.64522
Rectum adenocarcinoma_READ_TCGA-EI-6507-01A-11R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KMS20	CCLE Cell Line Gene CNV Profiles	-1.0	-1.57281
ZNF324	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.1276
PMC8542838-fimmu-12-742542.nxml--DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
regulation of protein targeting to membrane	GO Biological Process Annotations 2023	1.0	null
Rectum adenocarcinoma_READ_TCGA-EI-6885-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.132
VMRC-LCD	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0285
Brain Lower Grade Glioma_LGG_TCGA-TQ-A7RU-01A-21R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
recently	GeneRIF Biological Term Annotations	1.0	null
Bone marrow cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.508
Lung adenocarcinoma_LUAD_TCGA-55-8087-01A-11R-2241-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE57871_1_v_10_vorinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSTK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57886
ATG9B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.60037
BT-483	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.876595
TBX5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.0288
stomach	HPA Tissue Protein Expression Profiles	1.0	0.736095
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A19B-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lymphoid leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.099
Autosomal genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.372
NUT midline carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.362
PMC9574515-mmc2.xls-THP1_60_min_GM-CSF-Target_Gene_Symbol_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE159678_4_v_2_chloroquine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KU812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.81672
negative regulation of hydrolase activity	GO Biological Process Annotations 2015	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-SX-A71S-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.188
mdamb157	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.003
regulation of cell motility	GO Biological Process Annotations 2015	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7418-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC5727433-41467_2017_2029_MOESM3_ESM.xls-Sheet1-Supplementary_Data_1_DUB_shRNA_list_used_in_this_study_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
SNU-449	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.858487
Organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
regulation of defense response to virus by host	GO Biological Process Annotations 2023	1.0	null
Cyclin D1-CDK4 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.868
intracellular	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
SET	Pathway Commons Protein-Protein Interactions	1.0	null
cdc25a	GeneRIF Biological Term Annotations	1.0	null
Sperm glycocalyx	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.811
membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
regulation of programmed cell death	GO Biological Process Annotations 2015	1.0	null
bounding membrane of organelle	GO Cellular Component Annotations 2015	1.0	null
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.933403
cytoplasm	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
MGA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.3675
Pheochromocytoma and Paraganglioma_PCPG_TCGA-WB-A81W-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Nuclear cyclin-dependent protein kinase holoenzyme complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.172
Sarcoma_SARC_TCGA-X6-A8C7-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MAPK cascade	GO Biological Process Annotations 2025	1.0	null
endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
Uterine Carcinosarcoma_UCS_TCGA-N8-A4PN-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of ruffle assembly	GO Biological Process Annotations 2023	1.0	null
TBX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.1001
NUGC-4	COSMIC Cell Line Gene Mutation Profiles	1.0	null
PMC12172627-NIHMS2085635-supplement-5.xlsx-E2F1_GENIE_Results-Unnamed_1_E2F1	Rummagene Transcription Factor Associations 2026	1.0	null
DAN-G	COSMIC Cell Line Gene CNV Profiles	1.0	2.14796
dub3	GeneRIF Biological Term Annotations	1.0	null
TFEB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.8451
Proteasome regulatory particle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.027
Pancreatic adenocarcinoma_PAAD_TCGA-HZ-8636-01A-21R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulator	GeneRIF Biological Term Annotations	1.0	null
EMILIN3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.85458
Lung squamous cell carcinoma_LUSC_TCGA-O2-A52S-01A-11R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TRIL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.92216
Head and Neck squamous cell carcinoma_HNSC_TCGA-CN-5355-01A-01R-1436-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Chondroma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.031
Proteasome accessory complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.001
transiently	GeneRIF Biological Term Annotations	1.0	null
Skin - Sun Exposed (Lower leg)	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
Hedgehog signaling complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.976
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-4857-01A-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RAPGEF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.77738
Bone marrow disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.503
OMC-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
biological regulation	GO Biological Process Annotations 2015	1.0	null
CHAGO-K-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05515
ubiquitin-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
MG63	CCLE Cell Line Gene CNV Profiles	1.0	1.5999
DU-145	COSMIC Cell Line Gene Mutation Profiles	1.0	null
PMC11585558-41467_2024_54547_MOESM8_ESM.xlsx-TP53_vs_WT_DEG_FFPE-gene_name_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
organelle membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
deubiquitinates	GeneRIF Biological Term Annotations	1.0	null
CAB39	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.76903
GSE205729,GSE205731_2_v_3_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
protein K48-linked deubiquitination	GO Biological Process Annotations 2023	1.0	null
Liver cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.469
positive regulation of molecular function	GO Biological Process Annotations 2015	1.0	null
Leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.486
positive regulation of multi-organism process	GO Biological Process Annotations 2015	1.0	null
regulation of gtpase activity	GO Biological Process Annotations 2015	1.0	null
positive regulation of response to biotic stimulus	GO Biological Process Annotations 2015	1.0	null
FOS	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.6361
regulation of catalytic activity	GO Biological Process Annotations 2015	1.0	null
BCL7A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.17247
KMS28BM	CCLE Cell Line Gene CNV Profiles	-1.0	-2.14783
modification-dependent macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
Sarcoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.022
SCRIB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.65989
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A199-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
chorionic villus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.728563
Secondary Malignant Neoplasm Of Lymph Node	DisGeNET Gene-Disease Associations	1.0	null
Head and neck cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.069
HPRT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.07963
Lung adenocarcinoma_LUAD_TCGA-73-7498-01A-12R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE121824,GSE121826_0_v_6_scaf8_human	RummaGEO Gene Perturbation Signatures	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-6028-01A-11R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HSC-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.139
CNOT8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.88225
B-cell lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.292
example	GeneRIF Biological Term Annotations	1.0	null
ovary	HPA Tissue Gene Expression Profiles	1.0	0.952184
ZMYND11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.36324
Post-translational protein modification	Reactome Pathways 2024	1.0	null
GSE77108_8_v_7_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
regulation of ruffle assembly	GO Biological Process Annotations 2025	1.0	null
P2RX5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.7402
regulation of cell cycle G2/M phase transition	GO Biological Process Annotations 2023	1.0	null
endoplasmic reticulum part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Skin Cutaneous Melanoma_SKCM_TCGA-W3-A825-06A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HOXC5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.47685
Endoplasmic reticulum subcompartment	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Prostate gland cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.549
EP300_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ERGIC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62216
Brain Lower Grade Glioma_LGG_TCGA-TM-A84I-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
one	GeneRIF Biological Term Annotations	1.0	null
Hepatocellular carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.377
fetus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.099651
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EK-A2RN-01A-12R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cellular component movement	GO Biological Process Annotations 2015	1.0	null
OCUM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.914259
regulation of cell projection assembly	GO Biological Process Annotations 2015	1.0	null
Artery - Aorta	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
regulation of cell death	GO Biological Process Annotations 2015	1.0	null
cerebellum	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A1EH-11A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2898-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
endomembrane system	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
intracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
positive regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
peptidase activity, acting on l-amino acid peptides	GO Molecular Function Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HW-7491-01A-11R-2027-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SAGA complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.347
TMEM128	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.79454
endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
Colon cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.359
RFX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.2313
PMC12719073-mmc1.pdf-14-MYSM1_MYSM1	Rummagene Transcription Factor Associations 2026	1.0	null
Sarcoma_SARC_TCGA-HB-A43Z-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of response to biotic stimulus	GO Biological Process Annotations 2015	1.0	null
Integral component of lumenal side of endoplasmic reticulum membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.664
Cecum cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.569
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.1361
NKX2-2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.4791
VAL	COSMIC Cell Line Gene Mutation Profiles	1.0	null
cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.226262
Glioma	DisGeNET Gene-Disease Associations	1.0	null
Uterus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
regulation of cellular component organization	GO Biological Process Annotations 2015	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
GSE186471_1_v_0_carnosol_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EZH2_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00467
Lung adenocarcinoma_LUAD_TCGA-MP-A4SY-01A-21R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.105
embryo	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.437589
MFM-223	COSMIC Cell Line Gene CNV Profiles	1.0	2.14796
RFX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.4411
regulation of cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Stomach	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
H3K4me1_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-A46D-01A-21R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-RT-A6Y9-01A-12R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PBX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.3333
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QT-A5XK-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SKNMC	CCLE Cell Line Gene CNV Profiles	1.0	1.34473
Tonsil	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
CFPAC-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.651
moreover	GeneRIF Biological Term Annotations	1.0	null
proteolysis	GO Biological Process Annotations 2015	1.0	null
496100561_PCx_probable Alzheimer's disease_TBI_78_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.07891
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.7353
Kidney renal papillary cell carcinoma_KIRP_TCGA-DW-7841-01A-11R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF860	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.55332
murine	GeneRIF Biological Term Annotations	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-8010-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.053
CPCN	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65611
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-5199-01A-01R-1426-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PRKACG	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.56549
LUBAC complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.564
CBX1	Pathway Commons Protein-Protein Interactions	1.0	null
Lung adenocarcinoma_LUAD_TCGA-67-6217-01A-11R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
Liver hepatocellular carcinoma_LIHC_TCGA-G3-A7M9-01A-23R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE71468,GSE76476_2_v_1_rbfox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.058
liver	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
intracellular signaling cassette	GO Biological Process Annotations 2025	1.0	null
negative regulation of proteolysis	GO Biological Process Annotations 2023	1.0	null
regulation of protein targeting to membrane	GO Biological Process Annotations 2025	1.0	null
MMP16	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.82138
Colorectal Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
regulation of immune effector process	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4763-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cytoplasmic part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
prostate	HPA Tissue Protein Expression Profiles	1.0	1.32926
regulation of GTPase activity	GO Biological Process Annotations 2023	1.0	null
pro-B-lymphocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.703
BRE1 E3 ubiquitin ligase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.853
NFYA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.6665
CW-2	COSMIC Cell Line Gene Mutation Profiles	1.0	null
SW1710	CCLE Cell Line Gene CNV Profiles	1.0	1.39087
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1ZD-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
embryonic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.414293
RTL8B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.40874
regulation of cell migration	GO Biological Process Annotations 2023	1.0	null
HOP-92	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00803
regulation of RIG-I signaling pathway	GO Biological Process Annotations 2025	1.0	null
hematopoietic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056895
CCDC82	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.20412
SUZ12	ENCODE Transcription Factor Targets	1.0	null
protein modification by small protein removal	GO Biological Process Annotations 2015	1.0	null
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Prostate adenocarcinoma_PRAD_TCGA-CH-5751-01A-11R-1580-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE184892_6_v_3_trehalose_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-3924-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mammary gland cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.285
Brain Lower Grade Glioma_LGG_TCGA-TM-A84J-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-7745-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE182680,GSE182683_5_v_13_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
ZNF33B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.01079
fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.411251
pre-B-lymphocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.561
Kidney renal clear cell carcinoma_KIRC_TCGA-B2-4102-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of intracellular signal transduction	GO Biological Process Annotations 2015	1.0	null
Rectum adenocarcinoma_READ_TCGA-G5-6572-02A-12R-1830-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
nih-3t3 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.589234
GSE155836,GSE155839_3_v_2_alvocidib_human	RummaGEO Drug Perturbation Signatures	-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
CAAX-box protein maturation	GO Biological Process Annotations 2025	1.0	null
Cervix - Ectocervix	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
PMC7910580-41467_2021_21715_MOESM3_ESM.xlsx-DUBs_screen-Supplementary_Data_1_Results_of_DUB_shRNA_screen_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.053328
regulation of histone deacetylation	GO Biological Process Annotations 2015	1.0	null
regulation of multi-organism process	GO Biological Process Annotations 2015	1.0	null
organelle	GO Cellular Component Annotations 2015	1.0	null
TCF19	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.42684
LN-18	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-QU-A6IN-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-WB-A81K-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TP73	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5664
TEAD-YAP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.549
negative regulation of cellular component organization	GO Biological Process Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-CH-5753-01A-11R-1580-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of protein targeting	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4710-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-7737-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
INO80-type complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.886
MCL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.01003
NCI-H345	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Pheochromocytoma and Paraganglioma_PCPG_TCGA-WB-A81S-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SU-DHL-10	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-P5-A737-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.297447
cell part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
COLO-704	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.07531
non-Hodgkin lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.347
HCC2688	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50424
CSRP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.75291
regulation of primary metabolic process	GO Biological Process Annotations 2015	1.0	null
DDX27	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.76455
GSE223893_2_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
BT-20 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.674
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A6TC-01A-21R-A33J-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of GTPase activity	GO Biological Process Annotations 2025	1.0	null
ILKAP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.74303
HCC1937	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.826076
CAL 54	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.858487
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Testis	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Autosomal dominant disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.368
NFIC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.8725
SU-DHL-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.26057
Lung adenocarcinoma_LUAD_TCGA-97-A4M0-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.3887
astrocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.355604
RT4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09085
IA-LM	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Esophagus - Mucosa	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
key	GeneRIF Biological Term Annotations	1.0	null
cellular process	GO Biological Process Annotations 2015	1.0	null
Medulloblastoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.851
Kidney renal clear cell carcinoma_KIRC_TCGA-B8-4619-11A-01R-1758-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2904-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MANEAL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.89617
PMC12855127-Table1.xlsx-Sheet1-Table_S1_A_total_of_576_E3_genes_and_95_DUB_genes_were_identified_in_the_iUUCD_2_0_database_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.987845
cyclin/CDK positive transcription elongation factor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.133
CD40	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.70579
regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-8108-01A-11R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TQ-A7RI-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-7873-01B-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.22145
ME-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.936174
T24	CCLE Cell Line Gene CNV Profiles	1.0	1.34473
NCI-H250	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Lung adenocarcinoma_LUAD_TCGA-93-A4JO-01A-21R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K36me3_Fetal Brain	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
DAOY	CCLE Cell Line Gene CNV Profiles	-1.0	-3.02323
positive regulation of MDA-5 signaling pathway	GO Biological Process Annotations 2023	1.0	null
HCC2935	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00419
Immune system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.425
B4GALT5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.69238
GSE140651,GSE140653_2_v_4_med1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE180147_0_v_1_itga5_human	RummaGEO Gene Perturbation Signatures	1.0	null
496100463_FWM_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.01323
HCC515	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.62293
GSE89057_0_v_1_sox5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
binding	GO Molecular Function Annotations 2015	1.0	null
non-small cell lung cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.694
blood cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.063881
Rectum adenocarcinoma_READ_TCGA-AH-6903-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-A45O-01A-21R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
USF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3888
U937	CCLE Cell Line Gene CNV Profiles	1.0	1.85791
Liver hepatocellular carcinoma_LIHC_TCGA-ZP-A9D2-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Musculoskeletal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.308
Caki-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.778
anaphase-promoting complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.594
intracellular organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
RARB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.2539
Physical disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.009
negative regulation of protein maturation	GO Biological Process Annotations 2025	1.0	null
496100485_PCx_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.31912
GDF15	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.33704
MAPK cascade	GO Biological Process Annotations 2023	1.0	null
PMC11827247-41065_2025_387_MOESM5_ESM.xlsx-Sheet_1-Only_ESR_ESR1	Rummagene Transcription Factor Associations 2026	1.0	null
Lung adenocarcinoma_LUAD_TCGA-62-A46U-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
most	GeneRIF Biological Term Annotations	1.0	null
regulation of mitotic cell cycle	GO Biological Process Annotations 2015	1.0	null
protein processing	GO Biological Process Annotations 2023	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8429-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.399
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
oncogenic	GeneRIF Biological Term Annotations	1.0	null
Carcinoma, Ovarian Epithelial	DisGeNET Gene-Disease Associations	1.0	null
PRC1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.25
Chromosome Aberrations	HuGE Navigator Gene-Phenotype Associations	1.0	null
regulation of histone modification	GO Biological Process Annotations 2015	1.0	null
Th17 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.15
embryonic structure	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.493354
Pancreatic adenocarcinoma_PAAD_TCGA-IB-AAUS-01A-12R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H1355	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.12271
regulation of chromatin modification	GO Biological Process Annotations 2015	1.0	null
Nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.553
Peptidase C19, ubiquitin carboxyl-terminal hydrolase	InterPro Predicted Protein Domain Annotations	1.0	null
ZNF85	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.7997
THP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
WM983B	CCLE Cell Line Gene CNV Profiles	1.0	2.02676
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.645
H3K27me3_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUIT-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.851713
Primary immunodeficiency disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.124
such	GeneRIF Biological Term Annotations	1.0	null
negative regulation of histone deacetylation	GO Biological Process Annotations 2015	1.0	null
negative regulation of chromosome organization	GO Biological Process Annotations 2015	1.0	null
Proteasome complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.26
Endometriosis	DisGeNET Gene-Disease Associations	1.0	null
Urinary bladder cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.098
ZNF136	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.2449
MAST1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.4084
vitro	GeneRIF Biological Term Annotations	1.0	null
496100295_TCx_possible Alzheimer's disease_TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.26748
Lung adenocarcinoma_LUAD_TCGA-MP-A4TF-01A-11R-A262-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1ZS-06A-12R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE208350_0_v_1_fgfr1_human	RummaGEO Gene Perturbation Signatures	1.0	null
OSBPL11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.65349
DAN-G	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.19301
Pheochromocytoma and Paraganglioma_PCPG_TCGA-SP-A6QG-01A-12R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE249404_0_v_1_oxytocin_human	RummaGEO Drug Perturbation Signatures	1.0	null
FOS::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7368
Sarcoma_SARC_TCGA-PT-A8TR-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of protein catabolic process	GO Biological Process Annotations 2015	1.0	null
ACVR2A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.91231
Peripheral nervous system neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.191
KARPAS-45	COSMIC Cell Line Gene Mutation Profiles	1.0	null
protein modification by small protein conjugation or removal	GO Biological Process Annotations 2015	1.0	null
membrane	GO Cellular Component Annotations 2015	1.0	null
OVCA 432	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.57106
Oral squamous cell carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.737
transforming	GeneRIF Biological Term Annotations	1.0	null
NCIH508	CCLE Cell Line Gene CNV Profiles	1.0	1.78252
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A7PW-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Autoimmune disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.116
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
PR-DUB complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.283
Brain Lower Grade Glioma_LGG_TCGA-TM-A7CF-02A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE213153_1_v_0_ulixertinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
CTCF_LNCaP clone FGC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300	ENCODE Transcription Factor Targets	1.0	null
apoptosis	GeneRIF Biological Term Annotations	1.0	null
liver	GTEx Tissue Gene Expression Profiles	-1.0	-1.09748
Kidney renal papillary cell carcinoma_KIRP_TCGA-DZ-6131-11A-01R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
UBC13-UEV1A complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.562
PMC9574515-mmc1.xls-THP1_60_min_GM-CSF-Target_Gene_Symbol_GLI2	Rummagene Transcription Factor Associations 2026	1.0	null
SNAI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.8901
Head and Neck squamous cell carcinoma_HNSC_TCGA-MZ-A5BI-01A-31R-A34R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.1
endoplasmic reticulum	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MY-A5BD-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Endomembrane system	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
CHD7	ENCODE Transcription Factor Targets	1.0	null
RAS processing	Reactome Pathways 2024	1.0	null
Multiple myeloma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.161
JJN-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.21842
dub2	GeneRIF Biological Term Annotations	1.0	null
ASPC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.858487
ATP5PB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.82158
LNCAP	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84271
Nucleus	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
TCEANC2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.31603
protein K48-linked deubiquitination	GO Biological Process Annotations 2025	1.0	null
Lung adenocarcinoma_LUAD_TCGA-62-A46V-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
fetal membrane	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.371245
Lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.908
regulation of defense response to virus	GO Biological Process Annotations 2025	1.0	null
positive regulation of hydrolase activity	GO Biological Process Annotations 2015	1.0	null
HS 578T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.81532
Liver hepatocellular carcinoma_LIHC_TCGA-2Y-A9GT-01A-11R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9423
LRP5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.19588
Sarcoma_SARC_TCGA-K1-A42X-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCIH441	CCLE Cell Line Gene CNV Profiles	-1.0	-1.93842
NUDHL1	CCLE Cell Line Gene CNV Profiles	1.0	1.4027
Kidney Chromophobe_KICH_TCGA-KN-8423-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of MDA-5 signaling pathway	GO Biological Process Annotations 2025	1.0	null
intracellular part	GO Cellular Component Annotations 2015	1.0	null
protein k48-linked deubiquitination	GO Biological Process Annotations 2015	1.0	null
ZNF211	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.296
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
Prostate cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.738
Malignant Neoplasm	DisGeNET Gene-Disease Associations	1.0	null
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.902
MYCN	ChEA Transcription Factor Targets	1.0	null
negative regulation of protein targeting to membrane	GO Biological Process Annotations 2015	1.0	null
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-GS-A9TV-01A-11R-A38C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Sarcoma_SARC_TCGA-IF-A4AK-01A-21R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
positive regulation of signal transduction	GO Biological Process Annotations 2015	1.0	null
apoptotic process	GO Biological Process Annotations 2015	1.0	null
regulation of chromatin organization	GO Biological Process Annotations 2015	1.0	null
regulation of protein targeting to membrane	GO Biological Process Annotations 2015	1.0	null
Ovarian disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.605
negative regulation of cell cycle	GO Biological Process Annotations 2015	1.0	null
CTCF	ENCODE Transcription Factor Targets	1.0	null
endoplasmic reticulum membrane	GO Cellular Component Annotations 2025	1.0	null
BALL-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
positive regulation of rig-i signaling pathway	GO Biological Process Annotations 2015	1.0	null
PMC11743796-41420_2025_2295_MOESM5_ESM.xlsx-aged_LPS_BV-2_vs_human_upreg-human_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Autosomal dominant cerebellar ataxia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.893
GSE190316,GSE190324_0_v_11_rbm4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Lumenal side of endoplasmic reticulum membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.573
GATA2	JASPAR Predicted Transcription Factor Targets	1.0	null
negative regulation of protein processing	GO Biological Process Annotations 2023	1.0	null
Acute myeloid leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.254
Endometrioid carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.626
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4761-01A-01R-1289-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of protein processing	GO Biological Process Annotations 2023	1.0	null
kidney	GTEx Tissue Gene Expression Profiles	-1.0	-0.923819
GSE188382_2_v_1_sirt5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-05-4422-01A-01R-1206-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Central nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.379
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4845-01A-01R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of protein metabolic process	GO Biological Process Annotations 2015	1.0	null
Adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.506
A673	COSMIC Cell Line Gene Mutation Profiles	1.0	null
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.35829
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MY-A5BE-01A-21R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4988-01A-01R-1334-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Melanoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.409
THP-1	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
Lung adenocarcinoma_LUAD_TCGA-J2-A4AE-01A-21R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.887
regulation of apoptotic process	GO Biological Process Annotations 2015	1.0	null
Squamous cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.549
NFYC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.6848
CYB5D2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.96507
Childhood Osteosarcoma	DisGeNET Gene-Disease Associations	1.0	null
SKM1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47745
KYSE-70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50424
negative regulation of transport	GO Biological Process Annotations 2015	1.0	null
Sarcoma_SARC_TCGA-PC-A5DP-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Uterine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.483
Pheochromocytoma and Paraganglioma_PCPG_TCGA-P8-A5KD-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RERFLCAD1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.82447
PANC 08.13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32763
deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
GALK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.31622
MEIS3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.5257
MHH-PREB-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
regulation of transport	GO Biological Process Annotations 2015	1.0	null
PKNOX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5519
EHEB	COSMIC Cell Line Gene Mutation Profiles	1.0	null
BEN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.825658
SNU-216	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00419
Hyaluronan/mRNA-binding protein	InterPro Predicted Protein Domain Annotations	1.0	null
ZSCAN18	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.1641
RRP1B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.58443
Brain Lower Grade Glioma_LGG_TCGA-S9-A6U2-01A-21R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TYK-NU.CP-R	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.914259
Liver hepatocellular carcinoma_LIHC_TCGA-RC-A7SB-01A-21R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
factordependent	GeneRIF Biological Term Annotations	1.0	null
Malignant exocrine pancreas neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.08
Lymphoid tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
programmed cell death	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-A3-3385-01A-02R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Karyomere	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.812
MDA-MB-134-VI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.942229
lymphoid tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.063212
PMC6855629-pone.0225186.s009.xlsx-Sheet1-DEGs_downregulated_in_HEK293_MEIS1_KO_MEIS1	Rummagene Transcription Factor Associations 2026	1.0	null
CNMD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.02791
regulation of intracellular protein transport	GO Biological Process Annotations 2015	1.0	null
Stomach disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.361
Lung squamous cell carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.628
Lung squamous cell carcinoma_LUSC_TCGA-21-5782-01A-01R-1635-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
salivary gland	GTEx Tissue Gene Expression Profiles	-1.0	-2.10021
MDA-MB-231 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.529
Urinary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.334
Oral epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.653
Rectum adenocarcinoma_READ_TCGA-AG-3732-11A-01R-1660-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.824
T-cell lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.509
Sarcoma_SARC_TCGA-X6-A7WD-01A-21R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
COPRS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.26226
Aplastic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.09
Myeloid leukemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.302
Giant cell carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.947
GSE223609,GSE223610_0_v_1_kdm6a_human	RummaGEO Gene Perturbation Signatures	1.0	null
HS821T	CCLE Cell Line Gene CNV Profiles	1.0	1.61493
cell part	GO Cellular Component Annotations 2015	1.0	null
positive regulation of RIG-I signaling pathway	GO Biological Process Annotations 2025	1.0	null
Sarcoma_SARC_TCGA-WK-A8XT-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTNNB1-20615089-FETAL_BRAIN-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-8216-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.969
TUBG2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.64816
CBX8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of cell migration	GO Biological Process Annotations 2025	1.0	null
HOOK3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.78071
Lung adenocarcinoma_LUAD_TCGA-86-7701-01A-11R-2170-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
positive regulation of intracellular signal transduction	GO Biological Process Annotations 2025	1.0	null
MCC13	COSMIC Cell Line Gene Mutation Profiles	1.0	null
transformation	GeneRIF Biological Term Annotations	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7304-01A-12R-2090-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DUBm complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.983
regulation of cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.279724
Ishikawa cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.509
SNU-175	COSMIC Cell Line Gene Mutation Profiles	1.0	null
MCAS	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.20526
Gonadal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.61
DANG	CCLE Cell Line Gene CNV Profiles	1.0	2.40924
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.039883
positive regulation of immune effector process	GO Biological Process Annotations 2023	1.0	null
Embryonic hippocampal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.809
nucleus	LOCATE Predicted Protein Localization Annotations	1.0	null
organelle part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Kidney renal papillary cell carcinoma_KIRP_TCGA-SX-A7SN-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE202434,GSE202438_9_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2971-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cell population proliferation	GO Biological Process Annotations 2025	1.0	null
KMS-11	COSMIC Cell Line Gene Mutation Profiles	1.0	null
BT-549	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.872647
HCC12	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
GFI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.9509
Prostate adenocarcinoma_PRAD_TCGA-Y6-A8TL-01A-21R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-BF-A5EP-01A-12R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CarB cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.609
CH25H	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.24383
MKN45	COSMIC Cell Line Gene Mutation Profiles	1.0	null
regulation of defense response	GO Biological Process Annotations 2015	1.0	null
Lung adenocarcinoma_LUAD_TCGA-44-2666-01A-01R-0946-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Urinary bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
major	GeneRIF Biological Term Annotations	1.0	null
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.671
members	GeneRIF Biological Term Annotations	1.0	null
IM-95M	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
ALDH9A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.57535
subverts	GeneRIF Biological Term Annotations	1.0	null
epididymis	HPA Tissue Protein Expression Profiles	1.0	1.32926
BBC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.44711
CTNNB1	ChEA Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-B1-A47O-01A-11R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2978-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
496100489_HIP_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.31744
Adrenocortical carcinoma_ACC_TCGA-OR-A5JK-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
496100363_TCx_no dementia_TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.54864
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.29799
BL7535 (NOTCH1)	NURSA Protein Complexes	1.0	null
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE233679_6_v_2_nicotinamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HEL	COSMIC Cell Line Gene Mutation Profiles	1.0	null
macromolecule modification	GO Biological Process Annotations 2015	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-56-8629-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DV-90	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
Rectum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
Membrane	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Transcription export complex 2	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.597
negative regulation of catalytic activity	GO Biological Process Annotations 2015	1.0	null
CPSF7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.95285
HCC202	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.62293
positive regulation of response to external stimulus	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5456-01A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MSANTD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.6106
review	GeneRIF Biological Term Annotations	1.0	null
positive regulation of immune system process	GO Biological Process Annotations 2015	1.0	null
Ovarian cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.619
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EA-A3QD-01A-32R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung adenocarcinoma_LUAD_TCGA-62-A471-01A-12R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BRCA1-A complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.687
Pancreas	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
EPLC-272H	COSMIC Cell Line Gene Mutation Profiles	1.0	null
NCI-H2023	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.81672
HAL-01	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
EJM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58353
intracellular organelle	GO Cellular Component Annotations 2015	1.0	null
Intracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
organic substance metabolic process	GO Biological Process Annotations 2015	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8431-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ubiquitin-like protein-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.876595
CCNF	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.89472
catabolic process	GO Biological Process Annotations 2015	1.0	null
STAT3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.9622
GSE187006_3_v_2_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC11769652-EHF2-12-250-s001.xlsx-Sheet1-ZEB1_ZEB1	Rummagene Transcription Factor Associations 2026	1.0	null
NOP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.43024
Prostate adenocarcinoma_PRAD_TCGA-EJ-A46H-01A-31R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Autoimmune disease of musculoskeletal system	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.0
regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
GATA3-26560356-CHIP-SEQ-TH2-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Peptidase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.223
PBX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.1473
ADAMTS1	Pathway Commons Protein-Protein Interactions	1.0	null
XBP1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.9909
been	GeneRIF Biological Term Annotations	1.0	null
VCaP cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.681
cell cycle checkpoint	GO Biological Process Annotations 2015	1.0	null
CTLL-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.793
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
Embryonic brain cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.624
Bladder Urothelial Carcinoma_BLCA_TCGA-CF-A1HS-01A-11R-A13Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MAX::MYC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.0476
organelle membrane	GO Cellular Component Annotations 2015	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.296013
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
negative regulation of protein transport	GO Biological Process Annotations 2015	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-7911-01A-11R-2170-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-8470-01A-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of response to stimulus	GO Biological Process Annotations 2015	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-FG-8189-01B-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC8526018-KAUP_A_1856493_SM1378.xlsx-Table_S5-_DUB_genes-Table_S5_Compared_deubiquitinating_enzyme_genes_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Pancreas disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.339
496100426_PCx_no dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.52186
positive regulation of biological process	GO Biological Process Annotations 2015	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-ZF-AA4W-01A-12R-A38B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Tumor Cell Invasion	DisGeNET Gene-Phenotype Associations	1.0	null
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
regulation of proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
LYRM9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.89123
negative regulation of cellular protein localization	GO Biological Process Annotations 2015	1.0	null
NCI-H1155	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
ESRRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.7219
deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
regulation of cell cycle G2/M phase transition	GO Biological Process Annotations 2025	1.0	null
Pancreatic carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.08
Lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.83
rnf8	GeneRIF Biological Term Annotations	1.0	null
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
LGI2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.39423
GSE131649_2_v_9_hemin_human	RummaGEO Drug Perturbation Signatures	1.0	null
negative regulation of protein localization to membrane	GO Biological Process Annotations 2023	1.0	null
UKE-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4723
Carcinogenesis	DisGeNET Gene-Phenotype Associations	1.0	null
CAAX-box protein processing	GO Biological Process Annotations 2023	1.0	null
protein metabolic process	GO Biological Process Annotations 2015	1.0	null
proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8429-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cell motility	GO Biological Process Annotations 2023	1.0	null
PFEIFFER	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10636
TE-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.611
PMC11645450-MCO2-5-e70036.nxml-TABLE_1-DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Colonic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.353
JHOS2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.22118
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.965
Lung	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
LARS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	4.04288
THP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.59641
JHOS-4	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
FBXO27	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.90672
lymphoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.086975
regulation of response to stress	GO Biological Process Annotations 2015	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CR-6488-01A-12R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC3419980-leu201249x2.xls-RUNX1-ETO_siRE_ChIPSeq_peaks_ge-gene_name_RUNX1	Rummagene Transcription Factor Associations 2026	1.0	null
496100334_PCx_probable Alzheimer's disease_no TBI_79_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.03966
Brain Lower Grade Glioma_LGG_TCGA-QH-A6X3-01A-21R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MAPK1/MAPK3 signaling	Reactome Pathways 2024	1.0	null
ubiquitin	GeneRIF Biological Term Annotations	1.0	null
rectum	HPA Tissue Protein Expression Profiles	1.0	1.32926
Brain Lower Grade Glioma_LGG_TCGA-DU-6399-01A-12R-1708-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Uterine disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.457
PMC3064265-NIHMS252278-supplement-3.xls-A_Interactions-Supplementary_Table_2_DUB_data_No_Control_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-F7-A50G-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Pheochromocytoma and Paraganglioma_PCPG_TCGA-WB-A81T-01A-11R-A35L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC5193459-pone.0168968.s009.xlsx-Dharmacon_OTP_siRNA_Area-Symbol_OTP	Rummagene Transcription Factor Associations 2026	1.0	null
ZNF8	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.7227
mitotic cell cycle process	GO Biological Process Annotations 2015	1.0	null
DLL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	4.11717
Skin Cutaneous Melanoma_SKCM_TCGA-EB-A3Y7-01A-11R-A239-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
A253	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34134
Breast Neoplasms	HuGE Navigator Gene-Phenotype Associations	1.0	null
proliferation	GeneRIF Biological Term Annotations	1.0	null
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.672
ACHN cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.754
GSE143782_6_v_5_calcitriol_human	RummaGEO Drug Perturbation Signatures	1.0	null
Site of DNA damage	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.097
Integumentary system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.072
SMAD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0012
Liver carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.374
positive regulation of mda-5 signaling pathway	GO Biological Process Annotations 2015	1.0	null
chorion	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.697808
HAND2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.6691
Male reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.744
Liver hepatocellular carcinoma_LIHC_TCGA-DD-A11C-01A-11R-A131-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.832
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-7056-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SREBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.1227
Bladder Urothelial Carcinoma_BLCA_TCGA-FD-A3N6-01A-11R-A21D-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BT-474	COSMIC Cell Line Gene Mutation Profiles	1.0	null
cervix, uterine	HPA Tissue Protein Expression Profiles	1.0	0.736095
BTF3	Pathway Commons Protein-Protein Interactions	1.0	null
CAL33	CCLE Cell Line Gene CNV Profiles	1.0	1.57776
ME1	CCLE Cell Line Gene CNV Profiles	1.0	1.55698
FERD3L	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.0891
Lymphatic system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.4
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A4F0-06A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
protein k63-linked deubiquitination	GO Biological Process Annotations 2015	1.0	null
HCC4017	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.57053
UBC	Pathway Commons Protein-Protein Interactions	1.0	null
Male reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.733
496100456_TCx_possible Alzheimer's disease_no TBI_100+_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.55261
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
TGIF2LX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.2023
NPTN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43121
496100378_TCx_probable Alzheimer's disease_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.39576
OGDH	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.35072
PF-382	COSMIC Cell Line Gene Mutation Profiles	1.0	null
NCI-H2228	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.826076
ATR-ATRIP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.818
Lung adenocarcinoma_LUAD_TCGA-83-5908-01A-21R-2287-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KMS12BM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58609
Pancreatic adenocarcinoma_PAAD_TCGA-IB-AAUM-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SW1271	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.86624
regulation of meiotic cell cycle phase transition	GO Biological Process Annotations 2025	1.0	null
IM-95	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46975
positive regulation of pattern recognition receptor signaling pathway	GO Biological Process Annotations 2023	1.0	null
Lung adenocarcinoma_LUAD_TCGA-67-6215-01A-11R-1755-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
LPCAT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.81917
Cystadenoma	DisGeNET Gene-Disease Associations	1.0	null
MTR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.23855
SCF ubiquitin ligase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.543
GSE119345_0_v_3_bexarotene_human	RummaGEO Drug Perturbation Signatures	1.0	null
NCIN87	CCLE Cell Line Gene CNV Profiles	1.0	1.54331
20460173-ImmPortComprehensiveListofImmune-RelatedGenes	GeneSigDB Published Gene Signatures	1.0	null
GSE150134_1_v_0_fluorouracil_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-7423-01A-11R-2081-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
H3K27me3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ruffle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.745
family	GeneRIF Biological Term Annotations	1.0	null
DSH1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
CDC25C	Pathway Commons Protein-Protein Interactions	1.0	null
Disease by infectious agent	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.094
Liver hepatocellular carcinoma_LIHC_TCGA-BD-A3EP-01A-11R-A22L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
organic substance catabolic process	GO Biological Process Annotations 2015	1.0	null
Congenital hypoplastic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.149
regulation of locomotion	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4161-01A-02R-1325-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
P-TEFb complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.163
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
HS852T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.99273
molecular_function	GO Molecular Function Annotations 2015	1.0	null
regulation of defense response to virus	GO Biological Process Annotations 2023	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A3YQ-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of organelle organization	GO Biological Process Annotations 2015	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.291365
ATF6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.8677
protein processing	GO Biological Process Annotations 2025	1.0	null
Respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.907
TFAP4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.2828
Osteosarcoma	DisGeNET Gene-Disease Associations	1.0	null
cycle	GeneRIF Biological Term Annotations	1.0	null
regulation of defense response to virus by host	GO Biological Process Annotations 2025	1.0	null
positive regulation of hydrolase activity	GO Biological Process Annotations 2023	1.0	null
ZNF37A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.23222
Rectum adenocarcinoma_READ_TCGA-AH-6643-11A-01R-1830-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.652
NKX2-8	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.2279
LRP10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.0923
KO52	CCLE Cell Line Gene CNV Profiles	1.0	2.29034
LTBP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.38235
when	GeneRIF Biological Term Annotations	1.0	null
carboxy-terminal domain protein kinase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.126
cysteine-type peptidase activity	GO Molecular Function Annotations 2023	1.0	null
GSE235066_4_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
caax-box protein processing	GO Biological Process Annotations 2015	1.0	null
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
three	GeneRIF Biological Term Annotations	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
MKN-74	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10636
GSE142630_0_v_2_hiltonol_human	RummaGEO Drug Perturbation Signatures	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-E7-A3Y1-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ATPAF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.60504
Lung adenocarcinoma_LUAD_TCGA-93-A4JQ-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Immune system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.4
GSE150134_1_v_0_scn5a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung adenocarcinoma_LUAD_TCGA-78-7537-01A-11R-2066-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC10149505-41392_2023_1393_MOESM2_ESM.xlsx-CPCMR-Hugo_Symbol_MEIS2	Rummagene Transcription Factor Associations 2026	1.0	null
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.916
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.97
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-5557-01A-01R-1514-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-WY-A85A-01A-21R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Head and Neck squamous cell carcinoma_HNSC_TCGA-CV-5970-01A-11R-1686-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of plasma membrane bounded cell projection assembly	GO Biological Process Annotations 2023	1.0	null
GSE205729,GSE205731_2_v_0_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
HDQP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32534
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5095-01A-01R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
negative regulation of protein processing	GO Biological Process Annotations 2015	1.0	null
Peripheral nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.07
Lung adenocarcinoma_LUAD_TCGA-86-7955-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
modification-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Perturb_17806_KO_ZNF675_SRP304971	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.49632
positive regulation of pattern recognition receptor signaling pathway	GO Biological Process Annotations 2025	1.0	null
CAAX-box protein maturation	GO Biological Process Annotations 2023	1.0	null
496100495_FWM_no dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.32866
Acute Myeloid Leukemia_LAML_TCGA-AB-2933-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EDARADD	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.95107
Metabolism of proteins	Reactome Pathways 2024	1.0	null
Ubiquitin specific protease, conserved site	InterPro Predicted Protein Domain Annotations	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-7013-01A-11R-2027-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SK-GT-4	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.369
MDA-MB-175-VII	COSMIC Cell Line Gene Mutation Profiles	1.0	null
lm2	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.635
endoplasmic reticulum membrane	GO Cellular Component Annotations 2015	1.0	null
interact	GeneRIF Biological Term Annotations	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A2GJ-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.643
Secondary Malignant Neoplasm Of Lung	DisGeNET Gene-Disease Associations	1.0	null
Lung adenocarcinoma_LUAD_TCGA-62-A472-01A-11R-A24H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE153867_6_v_4_olaparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Oral squamous cell carcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.911
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.47234
NCI-H1703	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23827
TC32	CCLE Cell Line Gene CNV Profiles	1.0	1.62482
single-organism process	GO Biological Process Annotations 2015	1.0	null
BRISC complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.637
regulation of programmed cell death	GO Biological Process Annotations 2023	1.0	null
Colon Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
PMC6705128-nihms-1046290.nxml--DUB_ZUP1	Rummagene Transcription Factor Associations 2026	1.0	null
EFM-19	COSMIC Cell Line Gene Mutation Profiles	1.0	null
thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.279011
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4781-01A-01R-1305-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EW-24	COSMIC Cell Line Gene Mutation Profiles	1.0	null
mitotic cell cycle checkpoint	GO Biological Process Annotations 2015	1.0	null
regulation of response to external stimulus	GO Biological Process Annotations 2015	1.0	null
SUIT2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55293
PBX3	ENCODE Transcription Factor Targets	1.0	null
NIT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.01513
NCKAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.98288
regulation of molecular function	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4971-01A-01R-1334-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2993-03A-01T-0735-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
membrane part	GO Cellular Component Annotations 2015	1.0	null
TFE3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.1873
Pancreatic adenocarcinoma_PAAD_TCGA-IB-7646-01A-11R-2156-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
regulation of cell migration	GO Biological Process Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-BP-4964-01A-01R-1334-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DHL-9 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.913
Hereditary ataxia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.712
PANC0327	CCLE Cell Line Gene CNV Profiles	-1.0	-2.45406
regulation of protein transport	GO Biological Process Annotations 2015	1.0	null
negative regulation of intracellular protein transport	GO Biological Process Annotations 2023	1.0	null
Autonomic nervous system neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.178
metabolic process	GO Biological Process Annotations 2015	1.0	null
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Lung adenocarcinoma_LUAD_TCGA-55-6975-11A-01R-1949-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney Chromophobe_KICH_TCGA-KL-8330-01A-11R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
WSU-DLCL2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
NCIH1568	CCLE Cell Line Gene CNV Profiles	1.0	1.58594
cysteine-type peptidase activity	GO Molecular Function Annotations 2015	1.0	null
rnf168	GeneRIF Biological Term Annotations	1.0	null
negative regulation of chromatin modification	GO Biological Process Annotations 2015	1.0	null
Endopeptidase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	2.236
organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.158778
EFNB3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45684
regulation of catabolic process	GO Biological Process Annotations 2015	1.0	null
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.17558
Brain Lower Grade Glioma_LGG_TCGA-TM-A7CA-01A-21R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BT-549 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.081
Cells - Cultured fibroblasts	GTEx Tissue Gene Expression Profiles 2023	-1.0	-0.71578
NCI-H820	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70451
numbers	GeneRIF Biological Term Annotations	1.0	null
Artery - Tibial	GTEx Tissue Gene Expression Profiles 2023	1.0	1.51415
Brain Lower Grade Glioma_LGG_TCGA-RY-A840-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SW 1116	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.44933
Hematopoietic system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
positive regulation of MDA-5 signaling pathway	GO Biological Process Annotations 2025	1.0	null
OCI-AML3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32355
RFK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.92001
variable	GeneRIF Biological Term Annotations	1.0	null
CTCF_LNCaP clone FGC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-FS-A1ZQ-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZNF180	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.87332
Adrenocortical carcinoma_ACC_TCGA-OR-A5JX-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Acute Myeloid Leukemia_LAML_TCGA-AB-2814-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MTFR2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.73606
lateral ventricle	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
prostate	HPA Tissue Gene Expression Profiles	1.0	1.53855
regulation of programmed cell death	GO Biological Process Annotations 2025	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20N-01A-11R-A14Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
LGMN	Pathway Commons Protein-Protein Interactions	1.0	null
HT-29	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81603
DND-41	COSMIC Cell Line Gene Mutation Profiles	1.0	null
positive regulation of immune effector process	GO Biological Process Annotations 2015	1.0	null
Sensory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.114
Epithelial Ovarian Cancer	DisGeNET Gene-Disease Associations	1.0	null
endoplasmic reticulum membrane	GO Cellular Component Annotations 2023	1.0	null
Immune system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
regulation of intracellular transport	GO Biological Process Annotations 2015	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-21-5783-01A-41R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SK-MM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.933403
ZFP57	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.428
PMC4823830-ncomms11171-s4.xlsx-high_in_shRNA_TCF1-GeneSymbol_HNF1A	Rummagene Transcription Factor Associations 2026	1.0	null
organism form	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.337808
RAF/MAP kinase cascade	Reactome Pathways 2024	1.0	null
496100451_TCx_no dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.36176
Urinary system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.269
YH13	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65886
death	GO Biological Process Annotations 2015	1.0	null
MARK4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.26855
CPC-N	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02959
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9659
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-4690-01A-01R-1277-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PNPT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68953
ATG4D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.94866
Sarcoma_SARC_TCGA-IF-A4AJ-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOSL1::JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.1588
NH-12	COSMIC Cell Line Gene Mutation Profiles	1.0	null
proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.872647
Brain Lower Grade Glioma_LGG_TCGA-P5-A5EZ-01A-11R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
single-organism cellular process	GO Biological Process Annotations 2015	1.0	null
GSE182680,GSE182683_7_v_13_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
OCI-AML5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.826355
Uterine Carcinosarcoma_UCS_TCGA-N9-A4PZ-01A-22R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hyaluranon cable	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.525
Adult T-cell lymphoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.6
SUM-159PT cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.875