association	dataset	threshold value	standardized value
Ubiquitin specific protease domain	InterPro Predicted Protein Domain Annotations	1.0	null
protein modification by small protein removal	GO Biological Process Annotations 2015	1.0	null
SKMEL1	CCLE Cell Line Gene CNV Profiles	1.0	3.27631
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6534
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53906
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
496100431_FWM_no dementia_TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.82736
rectum	HPA Tissue Protein Expression Profiles	1.0	1.32926
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
Post-translational protein modification	Reactome Pathways 2024	1.0	null
PAX6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.5116
PAX9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5658
regulation of protein metabolic process	GO Biological Process Annotations 2015	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
K029AX	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3543
HCC1395	CCLE Cell Line Gene CNV Profiles	-1.0	-2.68669
regulation of cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
JK1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37771
Uterine cervix	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
STAT3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.2107
U343	CCLE Cell Line Gene CNV Profiles	1.0	1.70306
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.32926
protein modification by small protein removal	GO Biological Process Annotations 2023	1.0	null
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
Oviduct	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_5_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
HS 69ST	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.964955
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3781
cellular process	GO Biological Process Annotations 2015	1.0	null
regulation of biological process	GO Biological Process Annotations 2015	1.0	null
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
PAX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5633
496100576_HIP_dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.95749
SKM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.82084
Connective tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
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	2.12613
peptidase activity	GO Molecular Function Annotations 2015	1.0	null
TCF7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.4924
Internal male genital organ	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
WIDR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
Lymphoid tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Lipopolysaccharide receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.976
biological_process	GO Biological Process Annotations 2015	1.0	null
HCC2218	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58846
Bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GSS	CCLE Cell Line Gene CNV Profiles	-1.0	-2.8155
496100348_TCx_probable Alzheimer's disease_no TBI_79_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.4995
HT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78493
HCC1806	CCLE Cell Line Gene CNV Profiles	-1.0	-1.95376
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
Epididymis	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
HSF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.1519
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_9_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.1503
NCI-H2196	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
RERFLCAD1	CCLE Cell Line Gene CNV Profiles	1.0	2.04563
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
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
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00426
REC1	CCLE Cell Line Gene CNV Profiles	1.0	1.72767
cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
hippocampus	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.828501
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
Uterus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
HS695T	CCLE Cell Line Gene CNV Profiles	1.0	1.73114
E2F4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.0624
Urinary system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Rectum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
intracellular organelle	GO Cellular Component Annotations 2015	1.0	null
stomach	HPA Tissue Protein Expression Profiles	1.0	0.736095
lateral ventricle	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
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	4.47004
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
protein modification by small protein conjugation or removal	GO Biological Process Annotations 2015	1.0	null
Microtubule organizing center attachment site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.23
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33498
LN-18	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
cysteine-type peptidase activity	GO Molecular Function Annotations 2023	1.0	null
COLO 320DM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
KELLY	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38038
macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
496100335_PCx_no dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.96887
protein deubiquitination	GO Biological Process Annotations 2015	1.0	null
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54844
TGBC11TKB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66854
ubiquitin-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
KLF11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	90.6607
regulation of programmed cell death	GO Biological Process Annotations 2025	1.0	null
NCIH1373	CCLE Cell Line Gene CNV Profiles	1.0	1.42321
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.6208
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14434
nucleus	GO Cellular Component Annotations 2015	1.0	null
Stomach	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
SNU601	CCLE Cell Line Gene CNV Profiles	-1.0	-2.26056
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
NCI-H358	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
HS852T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.48869
cellular macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
cerebral cortex	HPA Tissue Protein Expression Profiles	-1.0	-0.903885
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
parathyroid gland	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
protein deubiquitination	GO Biological Process Annotations 2023	1.0	null
Ub-specific processing proteases	Reactome Pathways 2024	1.0	null
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	1.3436
UMUC1	CCLE Cell Line Gene CNV Profiles	1.0	2.16729
HOXA5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.9097
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
Immune system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
SKBR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65369
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
ubiquitin-like protein-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
CAPAN-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
cysteine-type peptidase activity	GO Molecular Function Annotations 2025	1.0	null
ubiquitinyl hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.8783
Integrator complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.803
liver	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
NCI-H2803	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
HLFA	CCLE Cell Line Gene CNV Profiles	1.0	1.70338
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
496100303_HIP_no dementia_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.40981
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	1.33471
Ubiquitin specific protease, conserved site	InterPro Predicted Protein Domain Annotations	1.0	null
Decidua basalis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.077
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
Urinary bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.4929
RREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	176.0
MHHES1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77702
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
prostate	HPA Tissue Protein Expression Profiles	1.0	1.32926
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79249
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_1_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
cervix, uterine	HPA Tissue Protein Expression Profiles	1.0	0.736095
CA SKI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14515
KP3	CCLE Cell Line Gene CNV Profiles	1.0	1.66062
496100458_FWM_no dementia_no TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	6.76689
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
Golgi cisterna membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.837
peptidase activity, acting on l-amino acid peptides	GO Molecular Function Annotations 2015	1.0	null
GATA6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.7734
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.6087
PMC11827247-41065_2025_387_MOESM5_ESM.xlsx-Sheet_1-Only_ESR_ESR1	Rummagene Transcription Factor Associations 2026	1.0	null
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.599
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
USF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.3978
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.37813
SUPHD1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81586
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
TMD8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70088
PMC6961462-NIHMS1544104-supplement-Sup_Tab.xlsx-Sup_Table_3_a-Supplementary_Table_3_Genes_Regulated_by_A_MYB_in_Humans_and_Macaques_Bold_genes_with_reduced_expression_in_Group_3_MYB	Rummagene Transcription Factor Associations 2026	1.0	null
Colon	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
OVKATE	CCLE Cell Line Gene CNV Profiles	1.0	2.07461
HCC1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.39131
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.634
regulation of protein catabolic process	GO Biological Process Annotations 2015	1.0	null
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.4861
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
HUH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
ELK1::HOXA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6492
primary metabolic process	GO Biological Process Annotations 2015	1.0	null
modification-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
COLO 699	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
NCI-H1693	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
regulation of programmed cell death	GO Biological Process Annotations 2023	1.0	null
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.2708
protein metabolic process	GO Biological Process Annotations 2015	1.0	null
deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
nucleus	GO Cellular Component Annotations 2025	1.0	null
molecular_function	GO Molecular Function Annotations 2015	1.0	null
organic substance metabolic process	GO Biological Process Annotations 2015	1.0	null
Alimentary canal	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Gastrointestinal tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
regulation of proteolysis	GO Biological Process Annotations 2015	1.0	null
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
organelle	GO Cellular Component Annotations 2015	1.0	null
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54773
EGR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	82.059
ZFP42	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6176
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
Meiotic nuclear membrane microtubule tethering complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.277
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72314
intracellular part	GO Cellular Component Annotations 2015	1.0	null
Hyaluronan/mRNA-binding protein	InterPro Predicted Protein Domain Annotations	1.0	null
Peptidase C19, ubiquitin carboxyl-terminal hydrolase	InterPro Predicted Protein Domain Annotations	1.0	null
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.02719
KNS62	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86965
REH	CCLE Cell Line Gene CNV Profiles	1.0	1.41854
Golgi lumen	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.138
NCI-H1568	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
ZSCAN4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	80.3805
NCIH1436	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55493
endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
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	6.53484
Golgi cis cisterna	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.693
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2719
Urinary tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
protein modification process	GO Biological Process Annotations 2015	1.0	null
ZNF136	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	42.5964
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
BCL6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.4883
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28598
regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
496100386_PCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	4.66879
ELF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5949
HS 695T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08795
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
NB4	CCLE Cell Line Gene CNV Profiles	1.0	1.44418
regulation of cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
Colorectum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.17725
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
496100623_PCx_no dementia_TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.4758
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
CFPAC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
496100589_PCx_dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	9.03535
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.66825
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.0187
CEBPD	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.1787
cell part	GO Cellular Component Annotations 2015	1.0	null
endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
TRPS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.522
regulation of cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
epididymis	HPA Tissue Protein Expression Profiles	1.0	1.32926
VMRCLCD	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51354
HOS	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65179
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
HEP3B217	CCLE Cell Line Gene CNV Profiles	1.0	1.40745
SKNMC	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46058
cellular macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
Nuclear membrane microtubule tethering complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.277
metabolic process	GO Biological Process Annotations 2015	1.0	null
CEBPA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5585
cis-Golgi network	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.323
NCIH1341	CCLE Cell Line Gene CNV Profiles	1.0	1.45256
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
catalytic activity	GO Molecular Function Annotations 2015	1.0	null
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00958
urinary bladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
Tonsil	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
HLF	CCLE Cell Line Gene CNV Profiles	1.0	1.44563
RT11284	CCLE Cell Line Gene CNV Profiles	1.0	1.34116
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-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02444
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
Male reproductive system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
Golgi cisterna	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.29
Large intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GATA4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.6933
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21283
NCI-H2810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
proteasome-mediated ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
786-O	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829994
organic substance 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
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.938616
CAKI-1	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
proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
macromolecule modification	GO Biological Process Annotations 2015	1.0	null
MSANTD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.1688
macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
Viscus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
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	4.16349
NCIH1693	CCLE Cell Line Gene CNV Profiles	1.0	1.69079
PMC11551467-pnas.2414963121.sapp.pdf-10-ZNF76_ZNF76	Rummagene Transcription Factor Associations 2026	1.0	null
Deubiquitination	Reactome Pathways 2024	1.0	null
regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
SW1710	CCLE Cell Line Gene CNV Profiles	1.0	2.49101
regulation of primary metabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69525
Male reproductive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
EGR4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	74.927
catabolic process	GO Biological Process Annotations 2015	1.0	null
TOV21G	CCLE Cell Line Gene CNV Profiles	1.0	2.3175
regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
RT112	CCLE Cell Line Gene CNV Profiles	1.0	1.78257
cysteine-type peptidase activity	GO Molecular Function Annotations 2015	1.0	null
nucleus	GO Cellular Component Annotations 2023	1.0	null
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42358
Prostate gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
ECC12	CCLE Cell Line Gene CNV Profiles	-1.0	-2.05819
SIX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5454
NRL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.5763
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4609
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
FOSL1::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.958
KYSE-510	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47126
SH10TC	CCLE Cell Line Gene CNV Profiles	-1.0	-2.1676
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
SNU16	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49099
WSU-NHL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79416
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.1146
OSR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.3567
regulation of proteasomal protein catabolic process	GO Biological Process Annotations 2015	1.0	null
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.8945
modification-dependent macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
KLF9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	132.157
proteolysis	GO Biological Process Annotations 2015	1.0	null
cellular protein modification process	GO Biological Process Annotations 2015	1.0	null
cerebellum	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
HCC2279	CCLE Cell Line Gene CNV Profiles	1.0	1.55036
endoplasmic reticulum	GO Cellular Component Annotations 2015	1.0	null
LNCaP clone FGC	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.658
HS729	CCLE Cell Line Gene CNV Profiles	1.0	1.62118
cellular_component	GO Cellular Component Annotations 2015	1.0	null
NCI-H2122	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
Intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
496100571_FWM_dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	5.18745
regulation of catabolic process	GO Biological Process Annotations 2015	1.0	null
PMC8423434-mmc7.xlsx-KLF4_HENSM-Genes_n_2172_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
496100569_TCx_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	2.52443
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65384
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
HCC1576	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42205
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.5535
KNS-62	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.46108
NCIH358	CCLE Cell Line Gene CNV Profiles	1.0	1.33632
Protein phosphatase 4 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.272
HT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.60635
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
NKX2-2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.4076
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
HSF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9725
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
protein catabolic process	GO Biological Process Annotations 2015	1.0	null
regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
NCI-H446	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
SNAI2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1025
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.1006
NR2F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9564
Metabolism of proteins	Reactome Pathways 2024	1.0	null
Nuclear membrane protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.25
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
HCC4006	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
biological regulation	GO Biological Process Annotations 2015	1.0	null
PL45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
Gall bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
TP73	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.2211
SNU-387	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18444