association	dataset	threshold value	standardized value
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.66825
HSF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2129
496100277_FWM_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.43424
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.02719
STAT1::STAT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.3403
REC1	CCLE Cell Line Gene CNV Profiles	1.0	1.72767
NO36	DepMap CRISPR Gene Dependency	1.0	2.17402
SNU719	DepMap CRISPR Gene Dependency	1.0	2.26871
496100658_FWM_probable Alzheimer's disease_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.3517
NCIH1944	DepMap CRISPR Gene Dependency	1.0	2.53308
protein modification process	GO Biological Process Annotations 2015	1.0	null
ubiquitinyl hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
Ubiquitin specific protease, conserved site	InterPro Predicted Protein Domain Annotations	1.0	null
deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
C99	DepMap CRISPR Gene Dependency	1.0	3.27571
L33	DepMap CRISPR Gene Dependency	1.0	2.08272
regulation of biological process	GO Biological Process Annotations 2015	1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
nucleus	GO Cellular Component Annotations 2023	1.0	null
Post-translational protein modification	Reactome Pathways 2024	1.0	null
cell part	GO Cellular Component Annotations 2015	1.0	null
hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
Pitt-Hopkins syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.928
cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
SKRC20	DepMap CRISPR Gene Dependency	1.0	3.0132
regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
HS695T	CCLE Cell Line Gene CNV Profiles	1.0	1.73114
cysteine-type peptidase activity	GO Molecular Function Annotations 2023	1.0	null
TOV21G	DepMap CRISPR Gene Dependency	1.0	2.94457
SNU398	DepMap CRISPR Gene Dependency	1.0	2.54622
TTC642	DepMap CRISPR Gene Dependency	1.0	2.34666
Amylin receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.102
786-O	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829994
Gingival recession	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.177
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
macromolecule modification	GO Biological Process Annotations 2015	1.0	null
small intestine	GTEx Tissue Gene Expression Profiles	1.0	1.05388
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53906
regulation of cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
RPMI2650	DepMap CRISPR Gene Dependency	1.0	2.09731
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.37813
SKM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.82084
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
Hyaluronan/mRNA-binding protein	InterPro Predicted Protein Domain Annotations	1.0	null
FOSL1::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.958
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6179
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69525
ZSCAN4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	88.9195
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6534
ECC12	CCLE Cell Line Gene CNV Profiles	-1.0	-2.05819
RT112	CCLE Cell Line Gene CNV Profiles	1.0	1.78257
HSSCH2	DepMap CRISPR Gene Dependency	1.0	2.52366
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
RREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	168.909
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14434
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
NB4	CCLE Cell Line Gene CNV Profiles	1.0	1.44418
stomach	HPA Tissue Protein Expression Profiles	1.0	0.736095
Calcaneal bone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.923
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
NCI-H1693	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
UMUC1	DepMap CRISPR Gene Dependency	1.0	2.68665
Peptidase C19, ubiquitin carboxyl-terminal hydrolase	InterPro Predicted Protein Domain Annotations	1.0	null
MFM223	DepMap CRISPR Gene Dependency	1.0	2.86252
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
HSF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.0547
CHLA266	DepMap CRISPR Gene Dependency	1.0	2.91749
regulation of primary metabolic process	GO Biological Process Annotations 2015	1.0	null
KMS20	DepMap CRISPR Gene Dependency	1.0	2.05153
endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
NCI-H2196	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.6571
JK1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37771
cellular_component	GO Cellular Component Annotations 2015	1.0	null
LN-18	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
metabolic process	GO Biological Process Annotations 2015	1.0	null
endoplasmic reticulum	GO Cellular Component Annotations 2015	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
SIX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5454
EGR4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	75.2785
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.4861
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
protein modification by small protein removal	GO Biological Process Annotations 2015	1.0	null
nucleus	GO Cellular Component Annotations 2015	1.0	null
regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
NB4	DepMap CRISPR Gene Dependency	1.0	2.23909
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.938616
MM1S	DepMap CRISPR Gene Dependency	1.0	2.37339
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42205
496100492_TCx_probable Alzheimer's disease_no TBI_89_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	5.70634
HCC2218	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58846
SH10TC	CCLE Cell Line Gene CNV Profiles	-1.0	-2.1676
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
regulation of programmed cell death	GO Biological Process Annotations 2023	1.0	null
UMUC1	CCLE Cell Line Gene CNV Profiles	1.0	2.16729
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.32926
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	1.33471
DANG	DepMap CRISPR Gene Dependency	1.0	2.05185
cellular process	GO Biological Process Annotations 2015	1.0	null
epididymis	HPA Tissue Protein Expression Profiles	1.0	1.32926
NCI-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02444
RPE1SS48	DepMap CRISPR Gene Dependency	1.0	2.35154
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
NCIH209	DepMap CRISPR Gene Dependency	1.0	2.5513
NB1	DepMap CRISPR Gene Dependency	1.0	2.82729
cellular protein modification process	GO Biological Process Annotations 2015	1.0	null
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.8092
cysteine-type peptidase activity	GO Molecular Function Annotations 2025	1.0	null
macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
proteolysis	GO Biological Process Annotations 2015	1.0	null
EBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.9225
HARA	DepMap CRISPR Gene Dependency	1.0	3.10447
OCIAML2	DepMap CRISPR Gene Dependency	1.0	3.01897
ELK1::HOXA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1938
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65384
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
TMD8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70088
496100441_PCx_probable Alzheimer's disease_TBI_88_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	6.52983
catalytic activity	GO Molecular Function Annotations 2015	1.0	null
NCIH1436	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55493
MM426	DepMap CRISPR Gene Dependency	1.0	3.19348
SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.156
HEP3B217	CCLE Cell Line Gene CNV Profiles	1.0	1.40745
NRL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.5763
K029AX	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3543
SUPHD1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81586
HT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78493
496100368_PCx_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.51095
Osteogenesis imperfecta	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.396
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33498
Temporomandibular joint	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.769
proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Semicircular canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.973
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
intracellular organelle	GO Cellular Component Annotations 2015	1.0	null
PMC8423434-mmc7.xlsx-KLF4_HENSM-Genes_n_2172_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
SW1710	CCLE Cell Line Gene CNV Profiles	1.0	2.49101
JOPACA1	DepMap CRISPR Gene Dependency	1.0	2.60537
NCI-H358	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
COGAR359	DepMap CRISPR Gene Dependency	1.0	2.0056
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	43.5652
SNU620	DepMap CRISPR Gene Dependency	1.0	2.88265
496100542_PCx_no dementia_no TBI_82_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.21942
breast	GTEx Tissue Gene Expression Profiles	1.0	0.894839
ubiquitin-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
KNS-62	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.46108
SJSA1	DepMap CRISPR Gene Dependency	1.0	2.48633
CEBPD	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.1787
NCI-H1568	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
biological regulation	GO Biological Process Annotations 2015	1.0	null
proteasome-mediated ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
PL45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.6208
MV411	DepMap CRISPR Gene Dependency	1.0	2.07229
protein metabolic process	GO Biological Process Annotations 2015	1.0	null
HCC2279	CCLE Cell Line Gene CNV Profiles	1.0	1.55036
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
SF539	DepMap CRISPR Gene Dependency	1.0	2.25082
Calcitonin family receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.914
Ub-specific processing proteases	Reactome Pathways 2024	1.0	null
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1314
cerebellum	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
modification-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
8MGBA	DepMap CRISPR Gene Dependency	1.0	2.31335
protein deubiquitination	GO Biological Process Annotations 2023	1.0	null
KLF11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	77.8882
HUH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
protein modification by small protein removal	GO Biological Process Annotations 2023	1.0	null
HS 69ST	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.964955
MDA-MB-330	COSMIC Cell Line Gene CNV Profiles	-1.0	-5.12655
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
HCC4006	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
TP73	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.2211
496100360_FWM_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	6.30778
TCF4-32651957-PLC/PRF/5-HUMAN-LIVER-HEPTOMA	ChEA Transcription Factor Targets 2022	1.0	null
COLO 699	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
G292CLONEA141B1	DepMap CRISPR Gene Dependency	1.0	2.65884
HUH7	DepMap CRISPR Gene Dependency	1.0	3.33205
NCIH1341	CCLE Cell Line Gene CNV Profiles	1.0	1.45256
USF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8105
regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
cellular macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.828501
496100623_PCx_no dementia_TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.531
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4245
LS513	DepMap CRISPR Gene Dependency	1.0	2.74649
SKNMC	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46058
TGIF2LX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.4583
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
496100379_TCx_probable Alzheimer's disease_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	5.15627
Metatarsal bone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.831
TGIF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.5859
D283MED	DepMap CRISPR Gene Dependency	1.0	2.09294
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
cerebral cortex	HPA Tissue Protein Expression Profiles	-1.0	-0.903885
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
BCL6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.1172
REH	CCLE Cell Line Gene CNV Profiles	1.0	1.41854
496100487_HIP_probable Alzheimer's disease_no TBI_89_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.51127
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	58.1493
ZNF75A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6631
Amylin receptor complex 1	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.191
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
regulation of proteolysis	GO Biological Process Annotations 2015	1.0	null
TFEB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9283
MELJUSO	DepMap CRISPR Gene Dependency	1.0	2.3097
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
Epiphysis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.782
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.17725
FLI1::DRGX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.7996
CA SKI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14515
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7034
HS578T	DepMap CRISPR Gene Dependency	1.0	2.01937
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.662
RERFLCAD1	CCLE Cell Line Gene CNV Profiles	1.0	2.04563
PBX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9613
HT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.60635
Y79	DepMap CRISPR Gene Dependency	1.0	2.42997
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
KLF9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	124.015
HOS	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65179
KKU100	DepMap CRISPR Gene Dependency	1.0	3.27202
496100418_TCx_no dementia_TBI_85_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.19711
organelle	GO Cellular Component Annotations 2015	1.0	null
regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
KP3	CCLE Cell Line Gene CNV Profiles	1.0	1.66062
HLFA	CCLE Cell Line Gene CNV Profiles	1.0	1.70338
nucleus	GO Cellular Component Annotations 2025	1.0	null
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	1.3436
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
FOXP3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.599
MSANTD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0034
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.8567
HCC1806	CCLE Cell Line Gene CNV Profiles	-1.0	-1.95376
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
peptidase activity, acting on l-amino acid peptides	GO Molecular Function Annotations 2015	1.0	null
organic substance metabolic process	GO Biological Process Annotations 2015	1.0	null
MERO83	DepMap CRISPR Gene Dependency	1.0	2.30616
496100525_TCx_probable Alzheimer's disease_no TBI_85_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.94705
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
HCC1395	CCLE Cell Line Gene CNV Profiles	-1.0	-2.68669
CAPAN-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
molecular_function	GO Molecular Function Annotations 2015	1.0	null
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
biological_process	GO Biological Process Annotations 2015	1.0	null
regulation of proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
NCIH1836	DepMap CRISPR Gene Dependency	1.0	3.28784
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.599
D425	DepMap CRISPR Gene Dependency	1.0	2.53743
NCIH1693	CCLE Cell Line Gene CNV Profiles	1.0	1.69079
parathyroid gland	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54844
KELLY	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38038
RPE1SS51	DepMap CRISPR Gene Dependency	1.0	2.22181
cellular macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
YD15	DepMap CRISPR Gene Dependency	1.0	2.31693
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
EGR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	69.5568
regulation of protein catabolic process	GO Biological Process Annotations 2015	1.0	null
rectum	HPA Tissue Protein Expression Profiles	1.0	1.32926
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
lateral ventricle	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
SNU387	DepMap CRISPR Gene Dependency	1.0	2.58571
C84	DepMap CRISPR Gene Dependency	1.0	2.10805
ZFP42	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6176
Osteogenesis imperfecta type 12	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.772
VMRCLCD	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51354
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
primary metabolic process	GO Biological Process Annotations 2015	1.0	null
modification-dependent macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
SKBR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65369
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
OVKATE	CCLE Cell Line Gene CNV Profiles	1.0	2.07461
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
HCC1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.39131
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
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8265
ubiquitin-like protein-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00426
Paget's disease of bone 5	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.915
Ubiquitin specific protease domain	InterPro Predicted Protein Domain Annotations	1.0	null
HS 695T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08795
697	DepMap CRISPR Gene Dependency	1.0	2.7914
WSU-NHL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79416
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47126
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00958
REH	DepMap CRISPR Gene Dependency	1.0	3.68688
intracellular part	GO Cellular Component Annotations 2015	1.0	null
HS729	CCLE Cell Line Gene CNV Profiles	1.0	1.62118
HCC1576	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
Osteochondrodysplasia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.115
NCI-H446	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.1006
COLO 320DM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
TOV21G	CCLE Cell Line Gene CNV Profiles	1.0	2.3175
TCF7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8627
MLMA	COSMIC Cell Line Gene Mutation Profiles	1.0	null
protein deubiquitination	GO Biological Process Annotations 2015	1.0	null
NCI-H2810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42358
catabolic process	GO Biological Process Annotations 2015	1.0	null
fallopian tube	GTEx Tissue Gene Expression Profiles	1.0	2.18772
cysteine-type peptidase activity	GO Molecular Function Annotations 2015	1.0	null
regulation of cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
regulation of proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.1525
PKNOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.4949
YH13	DepMap CRISPR Gene Dependency	1.0	2.21783
HLF	CCLE Cell Line Gene CNV Profiles	1.0	1.44563
KNS62	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86965
Neonatal jaundice	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.002
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
regulation of catabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H2122	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
CFPAC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
Hyperostosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.387
Deubiquitination	Reactome Pathways 2024	1.0	null
SCS214	DepMap CRISPR Gene Dependency	1.0	2.49697
regulation of protein metabolic process	GO Biological Process Annotations 2015	1.0	null
HS766T	DepMap CRISPR Gene Dependency	1.0	3.07449
NCI-H2803	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
prostate	HPA Tissue Protein Expression Profiles	1.0	1.32926
Fibula	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.846
WIDR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.893239
JVM3	DepMap CRISPR Gene Dependency	1.0	2.58962
protein catabolic process	GO Biological Process Annotations 2015	1.0	null
RT11284	CCLE Cell Line Gene CNV Profiles	1.0	1.34116
OSRC2	DepMap CRISPR Gene Dependency	1.0	3.15044
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
hippocampus	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72314
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54773
NR2F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9564
496100467_FWM_probable Alzheimer's disease_no TBI_89_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	5.06393
U343	CCLE Cell Line Gene CNV Profiles	1.0	1.70306
PMC12719073-mmc1.pdf-14-MYSM1_MYSM1	Rummagene Transcription Factor Associations 2026	1.0	null
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
urinary bladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
Metabolism of proteins	Reactome Pathways 2024	1.0	null
SNU840	DepMap CRISPR Gene Dependency	1.0	2.20905
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28598
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.8735
endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
TGIF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.7381
SNU-387	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18444
HOXB2::ELK1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6624
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_5_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
MHHES1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77702
HS852T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.48869
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
TGBC11TKB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66854
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
496100602_TCx_dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.2343
CREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6179
cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
PE01	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
SKMEL1	CCLE Cell Line Gene CNV Profiles	1.0	3.27631
GSS	CCLE Cell Line Gene CNV Profiles	-1.0	-2.8155
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
PMC11827247-41065_2025_387_MOESM5_ESM.xlsx-Sheet_1-Only_ESR_ESR1	Rummagene Transcription Factor Associations 2026	1.0	null
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21283
PAX6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.7674
NCIH358	CCLE Cell Line Gene CNV Profiles	1.0	1.33632
JHOC5	DepMap CRISPR Gene Dependency	1.0	2.57737
HT55	DepMap CRISPR Gene Dependency	1.0	2.77064
protein modification by small protein conjugation or removal	GO Biological Process Annotations 2015	1.0	null
peptidase activity	GO Molecular Function Annotations 2015	1.0	null
496100545_HIP_possible Alzheimer's disease_no TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.67537
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
Pseudoxanthoma elasticum	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.154
496100564_TCx_no dementia_no TBI_82_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.57034
SNU16	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49099
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
regulation of programmed cell death	GO Biological Process Annotations 2025	1.0	null
EOL1	DepMap CRISPR Gene Dependency	1.0	2.47224
496100644_HIP_probable Alzheimer's disease_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.50162
Extraocular muscle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.847
PAX9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5658
KYSE-510	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
cervix, uterine	HPA Tissue Protein Expression Profiles	1.0	0.736095
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79249
NCIH1373	CCLE Cell Line Gene CNV Profiles	1.0	1.42321
organic substance catabolic process	GO Biological Process Annotations 2015	1.0	null
SNU601	CCLE Cell Line Gene CNV Profiles	-1.0	-2.26056
liver	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
regulation of cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
UHO1	DepMap CRISPR Gene Dependency	1.0	3.26934
U937	DepMap CRISPR Gene Dependency	1.0	2.44587
PAX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5633
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025