association	dataset	threshold value	standardized value
PK-45P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28598
SET2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47126
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00426
SNU-387	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18444
ECC12	CCLE Cell Line Gene CNV Profiles	-1.0	-2.05819
SKM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.82084
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
cervix, uterine	HPA Tissue Protein Expression Profiles	1.0	0.736095
nucleus	GO Cellular Component Annotations 2025	1.0	null
SKMEL1	CCLE Cell Line Gene CNV Profiles	1.0	3.27631
positive regulation of epithelial cell apoptotic process	GO Biological Process Annotations 2025	1.0	null
TGIF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.5859
KLF9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	145.367
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14434
NLRP1 inflammasome complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.755
EBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.9225
HS729	CCLE Cell Line Gene CNV Profiles	1.0	1.62118
intracellular non-membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
Nucleolus	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
HT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78493
TP53	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.9143
ZFP42	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6176
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	1.33471
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21283
Chorioretinitis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.564
SNU16	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49099
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
HCC1576	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
Solid Neoplasm	DisGeNET Gene-Phenotype Associations	1.0	null
BATF::JUN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7034
cerebellum	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
CFPAC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
NCI-H2803	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
NCI-H2461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02444
Congenital toxoplasmosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.28
NCIH358	CCLE Cell Line Gene CNV Profiles	1.0	1.33632
COLO 320DM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
Sickle cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.629
regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
RARA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	58.1165
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
Tachyzoite	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.032
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
Lupus Erythematosus	DisGeNET Gene-Disease Associations	1.0	null
PAX9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.5658
KLF11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	91.5095
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.00958
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
cysteine-type deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
496100573_HIP_no dementia_no TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.00427
35 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.745
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
Childhood Solid Neoplasm	DisGeNET Gene-Phenotype Associations	1.0	null
SKNMC	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46058
BATF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6179
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33498
496100468_PCx_no dementia_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.6191
Congenital nonspherocytic hemolytic anemia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.462
regulation of epithelial cell apoptotic process	GO Biological Process Annotations 2023	1.0	null
SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	33.156
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79249
Post-translational protein modification	Reactome Pathways 2024	1.0	null
496100435_TCx_probable Alzheimer's disease_TBI_88_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.71539
REH	CCLE Cell Line Gene CNV Profiles	1.0	1.41854
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
SIX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.5454
Pyruvate kinase deficiency of red cells	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.534
TP73	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.2211
PROX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2719
Nuclear membrane microtubule tethering complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.069
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
OSR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.3567
KNS62	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86965
RREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	218.273
membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
RMG-I	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72314
deubiquitinase activity	GO Molecular Function Annotations 2025	1.0	null
PAX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5633
FOSL1::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.958
non-membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
JK1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37771
protein deubiquitination	GO Biological Process Annotations 2025	1.0	null
WIDR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
ELK1::HOXA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6492
Carcinogenesis	DisGeNET Gene-Phenotype Associations	1.0	null
NCI-H358	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
NCI-H446	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Hereditary spherocytosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.123
Childhood Osteosarcoma	DisGeNET Gene-Disease Associations	1.0	null
NCI-H2122	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
membrane-enclosed lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
cysteine-type peptidase activity	GO Molecular Function Annotations 2025	1.0	null
HCC1806	CCLE Cell Line Gene CNV Profiles	-1.0	-1.95376
FOXA1-26457646-LHSAR-HUMAN-PROSTATECANCER	ChEA Transcription Factor Targets 2022	1.0	null
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
cysteine-type endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
Bradyzoite	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.841
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
regulation of programmed cell death	GO Biological Process Annotations 2023	1.0	null
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_9_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
liver	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
FOXP3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.599
HEP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
KELLY	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38038
FOXO1-32281255-CHONDROCYTES-HUMAN-OSTEOARTHRITIS	ChEA Transcription Factor Targets 2022	1.0	null
OVKATE	CCLE Cell Line Gene CNV Profiles	1.0	2.07461
TCF7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8627
prostate	HPA Tissue Protein Expression Profiles	1.0	1.32926
HSF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2129
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.893239
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	48.7078
HS 69ST	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.964955
positive regulation of epithelial cell apoptotic process	GO Biological Process Annotations 2023	1.0	null
TGBC11TKB	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66854
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
hippocampus	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69525
NCI-H1581	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.938616
U343	CCLE Cell Line Gene CNV Profiles	1.0	1.70306
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2025	1.0	null
Intracellular organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
PRDM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.6534
ovary	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
MSANTD3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0034
TRPS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5529
BICR 22	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.65384
Foreskin fibroblast cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.725
Tumor Cell Invasion	DisGeNET Gene-Phenotype Associations	1.0	null
TGIF2LX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.4583
TGIF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.7381
Toxoplasmosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.079
protein deubiquitination involved in ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2025	1.0	null
intracellular membraneless organelle	GO Cellular Component Annotations 2025	1.0	null
Non-Small Cell Lung Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
FOSL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.4861
COLO 699	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
SW1710	CCLE Cell Line Gene CNV Profiles	1.0	2.49101
MDA-MB-330	COSMIC Cell Line Gene CNV Profiles	-1.0	-5.12655
Intracellular membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
HS852T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.48869
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
Ubiquitin specific protease domain	InterPro Predicted Protein Domain Annotations	1.0	null
Intracellular non-membrane-bounded organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
Malignant Neoplasm	DisGeNET Gene-Disease Associations	1.0	null
HCC2218	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58846
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53906
ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2023	1.0	null
HLF	CCLE Cell Line Gene CNV Profiles	1.0	1.44563
KYSE-510	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54773
ZNF75A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.6631
VMRCLCD	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51354
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.54844
nuclear lumen	GO Cellular Component Annotations 2023	1.0	null
GATA6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.7381
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976613
RERFLCAD1	CCLE Cell Line Gene CNV Profiles	1.0	2.04563
regulation of epithelial cell apoptotic process	GO Biological Process Annotations 2025	1.0	null
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.6525
Ebl	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.991
PE01	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
KP3	CCLE Cell Line Gene CNV Profiles	1.0	1.66062
protein modification by small protein removal	GO Biological Process Annotations 2023	1.0	null
Decidua basalis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.853
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.4245
Hyaluronan/mRNA-binding protein	InterPro Predicted Protein Domain Annotations	1.0	null
MYOD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.3781
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
SNU601	CCLE Cell Line Gene CNV Profiles	-1.0	-2.26056
HCC1395	CCLE Cell Line Gene CNV Profiles	-1.0	-2.68669
PMC11827247-41065_2025_387_MOESM5_ESM.xlsx-Sheet_1-Only_ESR_ESR1	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H1693	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
GATA4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.0127
NR2F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.9564
NCI-H1568	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04445
BCL6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.1172
FOSL2::JUNB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.599
GSS	CCLE Cell Line Gene CNV Profiles	-1.0	-2.8155
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
KMS-34	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19603
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
Microtubule organizing center attachment site	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.023
TCF4-32651957-PLC/PRF/5-HUMAN-LIVER-HEPTOMA	ChEA Transcription Factor Targets 2022	1.0	null
PBX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.9613
496100623_PCx_no dementia_TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.07789
stomach	HPA Tissue Protein Expression Profiles	1.0	0.736095
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2023	1.0	null
lateral ventricle	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
RT112	CCLE Cell Line Gene CNV Profiles	1.0	1.78257
PMC12211354-12915_2025_2224_MOESM6_ESM.xlsx-Sheet1-Sheet1_The_source_list_of_zebrafish_Npas4b_targets_from_human_NPAS4_targets_in_CHEA3_database_NPAS4	Rummagene Transcription Factor Associations 2026	1.0	null
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
Ubiquitin specific protease, conserved site	InterPro Predicted Protein Domain Annotations	1.0	null
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.6208
jf1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.165
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	1.3436
HLFA	CCLE Cell Line Gene CNV Profiles	1.0	1.70338
epididymis	HPA Tissue Protein Expression Profiles	1.0	1.32926
NB4	CCLE Cell Line Gene CNV Profiles	1.0	1.44418
NCIH1436	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55493
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
LN-18	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.889738
NCIH1693	CCLE Cell Line Gene CNV Profiles	1.0	1.69079
HS695T	CCLE Cell Line Gene CNV Profiles	1.0	1.73114
Organelle	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
496100589_PCx_dementia_TBI_81_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.1873
SCC-25	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38076
Tumor Progression	DisGeNET Gene-Phenotype Associations	1.0	null
HEP3B217	CCLE Cell Line Gene CNV Profiles	1.0	1.40745
MHHES1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77702
786-O	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829994
Secondary Malignant Neoplasm Of Lung	DisGeNET Gene-Disease Associations	1.0	null
znf263_19887448_helas3_lof_human_gpl6884_gse19146	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-1.02628
regulation of programmed cell death	GO Biological Process Annotations 2025	1.0	null
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.32926
CAPAN-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
SKBR3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65369
Peptidase C19, ubiquitin carboxyl-terminal hydrolase	InterPro Predicted Protein Domain Annotations	1.0	null
CA SKI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.14515
RNA binding	GO Molecular Function Annotations 2023	1.0	null
EGR4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	89.5489
WSU-NHL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79416
HCC1395	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.39131
KNS-62	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.46108
Ub-specific processing proteases	Reactome Pathways 2024	1.0	null
Rhoptry	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.786
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.828501
proteolysis involved in protein catabolic process	GO Biological Process Annotations 2023	1.0	null
intracellular membrane-bounded organelle	GO Cellular Component Annotations 2025	1.0	null
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
Neoplasm Metastasis	DisGeNET Gene-Phenotype Associations	1.0	null
nucleus	LOCATE Predicted Protein Localization Annotations	1.0	null
Osteosarcoma	DisGeNET Gene-Disease Associations	1.0	null
PKNOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.4949
nucleolus	GO Cellular Component Annotations 2023	1.0	null
FOSL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.8783
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
nuclear lumen	GO Cellular Component Annotations 2025	1.0	null
PL45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	44.087
Deubiquitination	Reactome Pathways 2024	1.0	null
Nucleus	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
NRL	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.5763
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
protein deubiquitination	GO Biological Process Annotations 2023	1.0	null
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.50322
CEBPA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5585
USF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8105
RT11284	CCLE Cell Line Gene CNV Profiles	1.0	1.34116
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.34595
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2936
E2F4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.0624
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42205
Metabolism of proteins	Reactome Pathways 2024	1.0	null
interleukin-15 receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.946
SH10TC	CCLE Cell Line Gene CNV Profiles	-1.0	-2.1676
Intracellular organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
HCC2279	CCLE Cell Line Gene CNV Profiles	1.0	1.55036
Cryptosporidiosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.104
rectum	HPA Tissue Protein Expression Profiles	1.0	1.32926
hyaluronic acid binding	GO Molecular Function Annotations 2023	1.0	null
UMUC1	CCLE Cell Line Gene CNV Profiles	1.0	2.16729
496100476_TCx_no dementia_TBI_88_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.33078
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866072
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	41.2992
TMD8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70088
EGR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	89.442
parathyroid gland	HPA Tissue Protein Expression Profiles	-1.0	-1.44517
HUH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1248
urinary bladder	HPA Tissue Protein Expression Profiles	1.0	1.32926
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
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00171
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.983025
protein deubiquitination involved in ubiquitin-dependent protein catabolic process	GO Biological Process Annotations 2023	1.0	null
NCI-H2196	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.905023
Organelle lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0
HSF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.0547
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14664
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09303
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.02719
PMC8423434-mmc7.xlsx-KLF4_HENSM-Genes_n_2172_KLF4	Rummagene Transcription Factor Associations 2026	1.0	null
HCT-8 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.603
endopeptidase activity	GO Molecular Function Annotations 2023	1.0	null
SNAI2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1025
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30674
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.977474
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.17725
HCC1493	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42358
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0647
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.54068
SUPHD1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81586
CEBPD	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.1787
BATF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.8567
nucleolus	GO Cellular Component Annotations 2025	1.0	null
ZNF136	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.3349
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
Glioma	DisGeNET Gene-Disease Associations	1.0	null
Obesity	DisGeNET Gene-Disease Associations	1.0	null
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52074
Sporozoite	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.202
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.922577
cerebral cortex	HPA Tissue Protein Expression Profiles	-1.0	-0.903885
ZSCAN4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	88.9034
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_1_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23641
Cestode	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.747
positive regulation of apoptotic process	GO Biological Process Annotations 2025	1.0	null
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
deubiquitinase activity	GO Molecular Function Annotations 2023	1.0	null
NKX2-3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7198
Lipopolysaccharide receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.769
NCI-H2810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03948
TOV21G	CCLE Cell Line Gene CNV Profiles	1.0	2.3175
cysteine-type deubiquitinase 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	1.069
nucleus	GO Cellular Component Annotations 2023	1.0	null
HCC4006	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8265
HT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.60635
Breast Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
hyaluronic acid binding	GO Molecular Function Annotations 2025	1.0	null
NCIH1373	CCLE Cell Line Gene CNV Profiles	1.0	1.42321
Glucocorticoid Receptor Deficiency	DisGeNET Gene-Disease Associations	1.0	null
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.828822
496100424_FWM_probable Alzheimer's disease_TBI_88_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.38174
SK-MEL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.37813
positive regulation of apoptotic process	GO Biological Process Annotations 2023	1.0	null
K029AX	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3543
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.66825
NCIH1341	CCLE Cell Line Gene CNV Profiles	1.0	1.45256
Acute intermittent porphyria	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.264
Nuclear membrane protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.043
PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_5_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
REC1	CCLE Cell Line Gene CNV Profiles	1.0	1.72767
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
CREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.6179
HOS	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65179
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	2.25773
ATF4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8282
Coccidiosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.018
Nuclear lumen	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	1.0	5.0