association	dataset	threshold value	standardized value
496100331_TCx_probable Alzheimer's disease_TBI_100+_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.20354
hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
OSR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.3567
496100518_HIP_no dementia_TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.02941
BACH1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.9163
membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
protein catabolic process	GO Biological Process Annotations 2015	1.0	null
modification-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
Lipopolysaccharide receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.978
ubiquitin-like protein-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
CEBPA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5585
intracellular part	GO Cellular Component Annotations 2015	1.0	null
Stomach	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.66825
cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
lateral ventricle	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79249
urinary bladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
NCIH1436	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55493
PL45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
496100461_PCx_possible Alzheimer's disease_TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.15051
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
SH10TC	CCLE Cell Line Gene CNV Profiles	-1.0	-2.1676
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
cellular macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
HS729	CCLE Cell Line Gene CNV Profiles	1.0	1.62118
metabolic process	GO Biological Process Annotations 2015	1.0	null
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.17725
cysteine-type peptidase activity	GO Molecular Function Annotations 2015	1.0	null
Viscus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
KNS-62	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.46108
TGIF2LX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.6257
FOXP3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.599
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
EBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.9225
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	44.087
regulation of primary metabolic process	GO Biological Process Annotations 2015	1.0	null
parathyroid gland	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
SNU-387	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18444
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.6525
GSE207863_0_v_1_hdac5_human	RummaGEO Gene Perturbation Signatures	1.0	null
KYSE-510	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
FOSL1::JUND	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.2491
protein modification by small protein removal	GO Biological Process Annotations 2015	1.0	null
Deubiquitination	Reactome Pathways 2024	1.0	null
NRL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.4809
JK1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37771
496100605_TCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.27407
cellular_component	GO Cellular Component Annotations 2015	1.0	null
U343	CCLE Cell Line Gene CNV Profiles	1.0	1.70306
HCC1576	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
NCI-H1568	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
protein modification by small protein removal	GO Biological Process Annotations 2023	1.0	null
primary metabolic process	GO Biological Process Annotations 2015	1.0	null
496100615_HIP_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.15736
K029AX	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3543
HUH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
proteolysis	GO Biological Process Annotations 2015	1.0	null
EGR4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	96.2452
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
Colorectal adenoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.316
macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
GATA4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.0127
biological regulation	GO Biological Process Annotations 2015	1.0	null
protein deubiquitination	GO Biological Process Annotations 2015	1.0	null
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00426
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.37813
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
KP3	CCLE Cell Line Gene CNV Profiles	1.0	1.66062
KELLY	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38038
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	1.3436
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
HSF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2129
496100663_TCx_no dementia_no TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.11146
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
regulation of proteolysis	GO Biological Process Annotations 2015	1.0	null
USF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8105
regulation of programmed cell death	GO Biological Process Annotations 2023	1.0	null
modification-dependent macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
CFPAC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
HOS	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65179
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.938616
cervix, uterine	HPA Tissue Protein Expression Profiles	1.0	0.736095
endoplasmic reticulum	GO Cellular Component Annotations 2015	1.0	null
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.828501
proteasomal protein catabolic 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
regulation of metabolic process	GO Biological Process Annotations 2015	1.0	null
496100349_HIP_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.77371
496100630_PCx_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.29545
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6179
PAX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5633
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
Nuclear membrane microtubule tethering complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.279
RREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	218.636
HCC1395	CCLE Cell Line Gene CNV Profiles	-1.0	-2.68669
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65384
ECC12	CCLE Cell Line Gene CNV Profiles	-1.0	-2.05819
SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.156
proteolysis involved in cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	49.1916
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_1_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
regulation of cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54773
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33498
SKM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.82084
496100480_HIP_no dementia_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.19827
HS 695T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08795
cysteine-type peptidase activity	GO Molecular Function Annotations 2023	1.0	null
regulation of cellular protein catabolic process	GO Biological Process Annotations 2015	1.0	null
cell part	GO Cellular Component Annotations 2015	1.0	null
biological_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
stomach	HPA Tissue Protein Expression Profiles	1.0	0.736095
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53906
epididymis	HPA Tissue Protein Expression Profiles	1.0	1.32926
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.893239
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
peptidase activity, acting on l-amino acid peptides	GO Molecular Function Annotations 2015	1.0	null
Oviduct	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
NCI-H2810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
HCC2218	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58846
496100606_PCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.05127
HCC1806	CCLE Cell Line Gene CNV Profiles	-1.0	-1.95376
35 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.879
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8282
E2F4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.0624
catalytic activity	GO Molecular Function Annotations 2015	1.0	null
NCI-H1693	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_9_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
RT112	CCLE Cell Line Gene CNV Profiles	1.0	1.78257
496100609_TCx_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.02446
rectum	HPA Tissue Protein Expression Profiles	1.0	1.32926
prostate	HPA Tissue Protein Expression Profiles	1.0	1.32926
Uterus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
PAX9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5658
RT11284	CCLE Cell Line Gene CNV Profiles	1.0	1.34116
regulation of protein metabolic process	GO Biological Process Annotations 2015	1.0	null
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
KLF11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	91.5095
regulation of catabolic process	GO Biological Process Annotations 2015	1.0	null
FOSL1::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.285
GSS	CCLE Cell Line Gene CNV Profiles	-1.0	-2.8155
WSU-NHL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79416
regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.8567
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
TCF4-32651957-PLC/PRF/5-HUMAN-LIVER-HEPTOMA	ChEA Transcription Factor Targets 2022	1.0	null
catabolic process	GO Biological Process Annotations 2015	1.0	null
KLF9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	144.878
intracellular organelle	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
RARA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	58.1165
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
HS 69ST	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.964955
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47126
496100371_TCx_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.17379
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
regulation of programmed cell death	GO Biological Process Annotations 2025	1.0	null
COLO 699	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
EGR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	89.442
Peptidase C19, ubiquitin carboxyl-terminal hydrolase	InterPro Predicted Protein Domain Annotations	1.0	null
NCIH1373	CCLE Cell Line Gene CNV Profiles	1.0	1.42321
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
NR2F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9564
UMUC1	CCLE Cell Line Gene CNV Profiles	1.0	2.16729
Intestinal benign neoplasm	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.098
496100301_TCx_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.38003
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.5965
496100647_TCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.26172
cellular protein metabolic process	GO Biological Process Annotations 2015	1.0	null
regulation of biological process	GO Biological Process Annotations 2015	1.0	null
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
496100382_PCx_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.05449
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4245
CA SKI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14515
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.32926
GATA6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.7381
Large intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
TGIF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.4157
deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.95
HEP3B217	CCLE Cell Line Gene CNV Profiles	1.0	1.40745
organelle	GO Cellular Component Annotations 2015	1.0	null
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.02719
FOS	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.2154
TGIF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.5484
macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
WIDR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
NB4	CCLE Cell Line Gene CNV Profiles	1.0	1.44418
HCC2279	CCLE Cell Line Gene CNV Profiles	1.0	1.55036
REH	CCLE Cell Line Gene CNV Profiles	1.0	1.41854
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.6208
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54844
NCI-H446	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
Ub-specific processing proteases	Reactome Pathways 2024	1.0	null
Hyaluronan/mRNA-binding protein	InterPro Predicted Protein Domain Annotations	1.0	null
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
496100542_PCx_no dementia_no TBI_82_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.07919
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
NCI-H358	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
cellular macromolecule catabolic process	GO Biological Process Annotations 2015	1.0	null
HCC1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.39131
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2719
protein metabolic process	GO Biological Process Annotations 2015	1.0	null
regulation of macromolecule metabolic process	GO Biological Process Annotations 2015	1.0	null
proteasome-mediated ubiquitin-dependent protein 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
TRPS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5529
cysteine-type peptidase activity	GO Molecular Function Annotations 2025	1.0	null
TGIF2LY	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.7506
regulation of cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
liver	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
Microtubule organizing center attachment site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.232
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42358
Colon	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.6638
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21283
protein modification by small protein conjugation or removal	GO Biological Process Annotations 2015	1.0	null
Post-translational protein modification	Reactome Pathways 2024	1.0	null
SNU16	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49099
peptidase activity	GO Molecular Function Annotations 2015	1.0	null
HLF	CCLE Cell Line Gene CNV Profiles	1.0	1.44563
OVKATE	CCLE Cell Line Gene CNV Profiles	1.0	2.07461
nucleus	GO Cellular Component Annotations 2025	1.0	null
TOV21G	CCLE Cell Line Gene CNV Profiles	1.0	2.3175
RERFLCAD1	CCLE Cell Line Gene CNV Profiles	1.0	2.04563
GSE160817_7_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
cellular process	GO Biological Process Annotations 2015	1.0	null
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_5_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
ZFP42	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.0896
Tonsil	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
TGBC11TKB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66854
KNS62	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86965
COLO 320DM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2015	1.0	null
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3781
organic substance metabolic process	GO Biological Process Annotations 2015	1.0	null
SUPHD1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81586
organic substance catabolic process	GO Biological Process Annotations 2015	1.0	null
Skin fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.766
Bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
ELK1::HOXA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6492
molecular_function	GO Molecular Function Annotations 2015	1.0	null
Epididymis	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
496100512_PCx_probable Alzheimer's disease_no TBI_85_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.07523
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.2992
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.3574
macromolecule modification	GO Biological Process Annotations 2015	1.0	null
cerebellum	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
Uterine cervix	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	1.33471
Alimentary canal	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
Urinary system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
TMD8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70088
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
Meiotic nuclear membrane microtubule tethering complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.279
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8265
NCIH1341	CCLE Cell Line Gene CNV Profiles	1.0	1.45256
SKNMC	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46058
cerebral cortex	HPA Tissue Protein Expression Profiles	-1.0	-0.903885
SKBR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65369
TCF7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8627
cytoplasmic part	GO Cellular Component Annotations 2015	1.0	null
Ubiquitin specific protease, conserved site	InterPro Predicted Protein Domain Annotations	1.0	null
NCI-H2803	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
regulation of proteasomal protein catabolic 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
786-O	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829994
SW1710	CCLE Cell Line Gene CNV Profiles	1.0	2.49101
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14434
496100667_TCx_no dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.01613
regulation of cellular process	GO Biological Process Annotations 2015	1.0	null
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
Rectum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
protein modification process	GO Biological Process Annotations 2015	1.0	null
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
Intestine	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Ubiquitin specific protease domain	InterPro Predicted Protein Domain Annotations	1.0	null
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
BCL6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.1172
HCC4006	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
Gastrointestinal tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
cellular protein modification process	GO Biological Process Annotations 2015	1.0	null
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2015	1.0	null
nucleus	GO Cellular Component Annotations 2023	1.0	null
ZNF136	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.6404
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
CEBPD	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.515
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
Urinary tract	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
hippocampus	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
Colorectum	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
Lymphoid tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
CREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6179
GSE213410_2_v_3_calcitriol_human	RummaGEO Drug Perturbation Signatures	1.0	null
LN-18	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
Connective tissue	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
ubiquitin-specific protease activity	GO Molecular Function Annotations 2015	1.0	null
REC1	CCLE Cell Line Gene CNV Profiles	1.0	1.72767
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
HT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78493
TP73	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.2211
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
496100318_PCx_probable Alzheimer's disease_TBI_100+_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.62518
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
deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
endopeptidase activity	GO Molecular Function Annotations 2015	1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
cellular catabolic process	GO Biological Process Annotations 2015	1.0	null
Colon transversum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.802
Urinary bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
PKNOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.5744
HT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.60635
NCIH358	CCLE Cell Line Gene CNV Profiles	1.0	1.33632
MSANTD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0034
496100450_HIP_no dementia_no TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.10766
nucleus	GO Cellular Component Annotations 2015	1.0	null
ZSCAN4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	88.9034
CAPAN-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7034
HLFA	CCLE Cell Line Gene CNV Profiles	1.0	1.70338
Decidua basalis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.987
HSF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.0547
Gall bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00958
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
MHHES1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77702
MDA-MB-330	COSMIC Cell Line Gene CNV Profiles	-1.0	-5.12655
VMRCLCD	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51354
ubiquitinyl hydrolase activity	GO Molecular Function Annotations 2015	1.0	null
NCI-H2196	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42205
PMC12019518-ao5c02459_si_002.xlsx-Table_S3-Table_S3_Screening_of_genes_that_are_commonly_upregulated_in_cells_on_stiff_substrate_and_down-regulated_by_KD_of_UBE2A_B_AR	Rummagene Transcription Factor Associations 2026	1.0	null
regulation of cellular metabolic process	GO Biological Process Annotations 2015	1.0	null
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.1006
Nuclear membrane protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.252
regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
NCI-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02444
protein deubiquitination	GO Biological Process Annotations 2023	1.0	null
regulation of protein catabolic process	GO Biological Process 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
Metabolism of proteins	Reactome Pathways 2024	1.0	null
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6534
Immune system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
NCIH1693	CCLE Cell Line Gene CNV Profiles	1.0	1.69079
PMC12719073-mmc1.pdf-14-MYSM1_MYSM1	Rummagene Transcription Factor Associations 2026	1.0	null
SNU601	CCLE Cell Line Gene CNV Profiles	-1.0	-2.26056
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28598
SNAI2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1025
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72314
HS695T	CCLE Cell Line Gene CNV Profiles	1.0	1.73114
SKMEL1	CCLE Cell Line Gene CNV Profiles	1.0	3.27631
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
ZNF75A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6631
Prostate gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
HS852T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.48869
Foreskin fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.859
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303