association	dataset	threshold value	standardized value
EBNA2-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
OCI-LY-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.973628
Autosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.967
PC14	CCLE Cell Line Gene CNV Profiles	-1.0	-1.92863
GSE175787_5_v_6_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE240386,GSE242143_8_v_6_morc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Vitiligo	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.989486
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.272
GSE147876,GSE147877_4_v_7_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
verob4	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.938
TBX3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.3219
GSE201309_5_v_3_matrine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE147876,GSE147877_4_v_5_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
ovary cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.106233
b69	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.691
GCM1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.1424
GSE214931_1_v_0_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TTA-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.763
Johnston's organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.543
duodenum	HPA Tissue Protein Expression Profiles	1.0	1.36491
8505C cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.675
Cuboid bone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.161
PRDM1	JASPAR Predicted Transcription Factor Targets	1.0	null
DANG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46688
rectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.098358
immune system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.076542
PANC 05.04	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.90331
ML-2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.755
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.63588
GSE163240_2_v_4_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HCC1599	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81036
organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.041944
REST_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LN-229	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.855781
Starch grain	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.896
KARPAS-1106P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.91961
GSE238116_1_v_2_egr1_human	RummaGEO Gene Perturbation Signatures	1.0	null
TBR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.1251
TRPS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.121
trans-Golgi network transport vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.737
integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05834
membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Dendritic spine neck	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.086
EBNA2-21746931-IB4-LCL-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
Lung non-small cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.71
Rhabdomyocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.759
GSE245270_2_v_0_isoproterenol_human	RummaGEO Drug Perturbation Signatures	1.0	null
Oral apparatus	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.635
17099726-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
HEY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.64013
Male reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.313
PMC5817105-thnov08p0972s2.xls-SIX3-GeneName_SIX3	Rummagene Transcription Factor Associations 2026	1.0	null
Squamous cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.388
GSE240386,GSE242143_1_v_6_morc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Chloroplast membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.933
GSE229973_4_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ht-29 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.277197
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.841704
GSE223893_11_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.748
Mandibular ramus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.68
SRF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.3943
JHOS2	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
colorectal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.1034
GSE178714_3_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE221327_1_v_2_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
Esophageal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.032
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.32414
GSE153871_1_v_2_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.129
Autoimmune disease of skin and connective tissue	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
embryonal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.42664
Autoimmune disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
cervical squamous cell carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.25983
GSE89154_1_v_2_proscillaridin_human	RummaGEO Drug Perturbation Signatures	1.0	null
TBX4-33478486-IMR90-HUMAN-LUNG	ChEA Transcription Factor Targets 2022	1.0	null
GSE261563_2_v_1_atrx_human	RummaGEO Gene Perturbation Signatures	1.0	null
Seminoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.206
MDAMB361	CCLE Cell Line Gene CNV Profiles	1.0	2.09596
GSE148010,GSE148120_3_v_2_tet2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE48812_4_v_5_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
Chondrocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.563
ZNF35	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.7803
Malignant Neoplasm	DisGeNET Gene-Disease Associations	1.0	null
GSE140322_3_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Polyketide synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.003
Ovarian cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.039
jf5	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.397
DOR 13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.855781
large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.214297
cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.167224
epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069055
NKX2-3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7227
GSE175787_11_v_7_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
CORL23	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32086
Prostate disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.236
SNU-182	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08279
GSE205729,GSE205731_2_v_3_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Neoplasm Metastasis	DisGeNET Gene-Phenotype Associations	1.0	null
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.721
Endocrine gland cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.138
Adenocarcinoma in situ	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.156
GSE240386,GSE242143_1_v_4_morc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE175787_4_v_7_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
PTBP1_02_144	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.60514
KYSE-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08279
intracellular part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040227
GSE221327_6_v_2_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
USF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.256
NCIH747	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70619
Collagen type I trimer	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.922
FADU	CCLE Cell Line Gene CNV Profiles	1.0	1.82924
GSE175787_5_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
T47D	CCLE Cell Line Gene CNV Profiles	1.0	1.57262
Ovarian disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.007
GSE184087_2_v_3_tert_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.81
GSE184399_0_v_2_cnot1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.89
Testis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.87
embryonal carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.458241
TBX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.4318
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.257358
Stomach disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.151
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.149
BL-41 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.348
PMC8814143-41419_2022_4530_MOESM12_ESM.xlsx-up_ZNF32_vs_Vector-Unnamed_1_ZNF32	Rummagene Transcription Factor Associations 2026	1.0	null
STAT1::STAT2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	46.3871
Lung adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.412
JHH2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.59447
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.023
pi1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.565
lncap cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.287447
k562	HPA Cell Line Gene Expression Profiles	1.0	1.22661
gonad	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.825268
Cybrid cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.687
TBX5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.964
GSE163240_2_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE147876,GSE147877_4_v_11_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
cervix carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.089813
carcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.332661
ML-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.591
Integumentary system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.875435
GSE240439_1_v_2_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Leiomyosarcoma Of Uterus	DisGeNET Gene-Disease Associations	1.0	null
Gaucher's disease type II	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.245
NCIH3255	CCLE Cell Line Gene CNV Profiles	1.0	1.8614
GSE229973_3_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Mandibular condyle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.73
HCC70	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42424
G120	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.37162
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.085
TFEB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.5776
Lung adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.03
Promonocytic leukemia cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.676
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08279
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.992528
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.394
NCIH727	CCLE Cell Line Gene CNV Profiles	1.0	1.42017
NCIH650	CCLE Cell Line Gene CNV Profiles	-1.0	-2.20312
intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.211934
Dorsal raphe nucleus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.527
EW8	CCLE Cell Line Gene CNV Profiles	1.0	1.48797
PMC12616242-can-24-3452_supplementary_table_s2_suppst2.xlsx-Down_bins-Down_bins_loosing_H3K27me3_in_hpMSC-EWSR1_FLI1_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
colon	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.076163
prostate gland cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.224893
plant-type vacuole	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.77
internal female genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.238706
TFEC	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.8767
male reproductive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.758259
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.992528
rectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.089697
GSE223893_2_v_9_setd2_human	RummaGEO Gene Perturbation Signatures	1.0	null
HCC1143	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86416
non-hodgkin lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.126479
Immune system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.035
Meningioma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.816
Cladode	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.546
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.989486
ASAP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.842
GSE147876,GSE147877_4_v_10_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCC1954	CCLE Cell Line Gene CNV Profiles	1.0	1.40819
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055434
lm13	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.86
LC1SQSF	CCLE Cell Line Gene CNV Profiles	-1.0	-2.09288
hsa-miR-596	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
Mitotic checkpoint complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.594
PAS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.014
GSE175787_5_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
OVCA 429	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.03013
GSE221327_8_v_2_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
496100358_HIP_no dementia_TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	7.90144
Testicular cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.094
Exoskeleton	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.613
Ciliary pocket membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.682
urogenital system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.341495
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.083
Lung carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.699
BHLHE40	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.7174
GSE154337_0_v_1_temozolomide_human	RummaGEO Drug Perturbation Signatures	1.0	null
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.91824
TBX2-33478486-IMR90-HUMAN-LUNG	ChEA Transcription Factor Targets 2022	1.0	null
THRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.8187
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10096
Deep fiber	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.996
496100444_HIP_no dementia_no TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	11.0247
Fruit juice	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.753
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2396
Neural arch	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.941
Brachial plexus lesion	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.025
hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.065046
UT-7 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.692
G292CLONEA141B1	CCLE Cell Line Gene CNV Profiles	1.0	1.64384
GSE98898_8_v_1_hoxa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.859
endocrine gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.259591
COLO 800	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.46749
colonic adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.1337
GSE214931_1_v_5_temozolomide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Sepal	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.644
colonic cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.08538
HCC2157	CCLE Cell Line Gene CNV Profiles	1.0	1.7617
UMUC3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.45276
REST	ENCODE Transcription Factor Targets	1.0	null
GSE178714_3_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
BRCA1	JASPAR Predicted Transcription Factor Targets	1.0	null
HCC2279	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58196
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10096
Skin disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
GSE163240_3_v_4_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MLX	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.6578
Hepatocellular carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.002
intracellular membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043551
MYCN	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.6284
B875 antenna complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.061
ChaGo-K-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.756
VCAP	CCLE Cell Line Gene CNV Profiles	-1.0	-1.54299
Antennal lobe	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.874
GSE212330_1_v_0_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.048904
SNRK_overexpression_127_GSE30185	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.30971
t47d	HPA Cell Line Gene Expression Profiles	1.0	1.01643
Mycolate outer membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.579
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
female reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.472704
Female reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.019
SNAI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	28.1492
germinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.561392
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.975047
SK-MEL-37 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.878
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.401
Lacquer	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.519
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.891
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16711
carcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.367502
SQ1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.6005
NCI-H2030	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.51512
Hepatobiliary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.013
F5 meningioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.166
MX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08754
Temporomandibular joint	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.543
epithelial cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.281423
GSE169356_2_v_4_ivermectin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.061377
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.255
Adenocarcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.478
NPrEC cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.891
OAW42	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.855781
HCC38	CCLE Cell Line Gene CNV Profiles	-1.0	-2.3514
GSE175787_5_v_9_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Bacteriocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.202
GSE163240_3_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE147876,GSE147877_4_v_6_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE202825_2_v_1_ano1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Autoimmune disease of musculoskeletal system	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
Hip joint	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.819
disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.457487
reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.418099
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.974414
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.875435
GSE175787_8_v_7_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
Root nodule	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.7
NR2F6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.4165
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.07556
alimentary canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055822
NCIH1568	CCLE Cell Line Gene CNV Profiles	-1.0	-1.48557
germ cell cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.128749
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2396
AU565	CCLE Cell Line Gene CNV Profiles	1.0	1.4098
RBM34_02_141	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.66413
Lumbar spine	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.859
S-layer	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.794
Prostate gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.616
bp86	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.601
HCC1162	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.25693
Disease of anatomical entity	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
Paw	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.894
cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.462772
143B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.26309
Juice	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.076
ovary cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.097987
cellular_component	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.040081
NHEK cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.73
Plastid membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.893
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.945
RPMI7951	CCLE Cell Line Gene CNV Profiles	1.0	1.59252
la7	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.167
TT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.71985
skov-3 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.5228
GSE178714_3_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12179407-MCO2-6-e70261-s004.xlsx-down_TET3-KO_PQ_vs_Cas9_PQ-Unnamed_10_TET3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE245270_1_v_0_isoproterenol_human	RummaGEO Drug Perturbation Signatures	1.0	null
GATA6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.4213
adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.371994
cervical cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.251366
HCC827	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.887656
Plasma membrane-derived chromatophore	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.821
Plasma membrane light-harvesting complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.858
GSE147876,GSE147877_4_v_9_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE196835_0_v_1_ddx1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NR1H4::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.2746
testis	HPA Tissue Protein Expression Profiles	1.0	1.36491
LOU-NH91	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.1123
colonic cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.084744
CBX3_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MEL-745A cl. DS19 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.83
Immune system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
TBX20	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.1059
CH157MN	CCLE Cell Line Gene CNV Profiles	-1.0	-1.40231
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2969
mature t-cell and nk-cell lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.466928
TBX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.4163
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
TBX4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	34.7541
LN443	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35111
Gut juice	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.495
ovary adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.456055
seminoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.624143
GSE227698_5_v_3_g0s2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
testis	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.85505
GSE178714_6_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Testicular disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.043
GSE147876,GSE147877_2_v_11_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.973628
Adrenomedullin receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.945
NCI-H820	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.827311
Gonocyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.769
lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.108035
MYBL2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1677
Connective tissue disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.119
Mantle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.067
Palpus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.712
NR4A2::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2139
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.989486
intestinal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079415
GSE147876,GSE147877_4_v_0_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Salivary gland carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.042
dld-1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.663962
GSE261563_3_v_1_atrx_human	RummaGEO Gene Perturbation Signatures	1.0	null
EL-4 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.676
Tentacle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.773
Paraspeckles	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.952
U2OS	CCLE Cell Line Gene CNV Profiles	1.0	1.93515
Disease by infectious agent	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.256
av3	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.065
496100310_TCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	13.5925
cell part	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.04013
PE/CA-PJ15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18553
Kummell's disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.894
Liver cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.016
NCI-H2073	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.225
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.855781
GSE169356_0_v_5_ivermectin_human	RummaGEO Drug Perturbation Signatures	1.0	null
NKX2-4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1141
nucleus	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.22173
yolk sac	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.499223
pd5	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.035
a2	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.604
pt80	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.128
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10096
18398820-table1	GeneSigDB Published Gene Signatures	1.0	null
colorectal cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.104811
PMC7818749-12931_2021_1617_MOESM1_ESM.xlsx-TBX4-ENSEMBL_TBX4	Rummagene Transcription Factor Associations 2026	1.0	null
NCIH1355	CCLE Cell Line Gene CNV Profiles	1.0	1.32801
GATA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.3855
GSE227698_5_v_0_g0s2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.259
G44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.827311
CMK	CCLE Cell Line Gene CNV Profiles	1.0	1.40234
GSE236486_1_v_2_arnt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HUP-T4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23692
laminin-1 complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.772
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
KNS60	CCLE Cell Line Gene CNV Profiles	1.0	1.32748
GSE48812_4_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	1.0	null
el2	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.233
TFE3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.9743
Nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.119
adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069169
GSE140322_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BHLHE41	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.5226
KP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.42464
skmel31	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.284
SREBF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	48.692
GSE184399_0_v_3_cnot1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.75
GSE169356_2_v_1_ivermectin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
OV7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.855781
Stomach Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
TC2 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.559
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.3157
Colonic adenocarcinoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.817
Cysteine synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.189
b92	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.327
Hoof	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.812
ovary cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.325701
ZSCAN16	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.9838
prostate cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.071216
GSE248887_0_v_1_dkk1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Leaf disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.982
plastid-encoded plastid RNA polymerase complex B	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.539
TBX15	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.0228
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.854
colonic cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.088153
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	1.0	2.59998
membrane-bounded organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.043472
nucleus	LOCATE Predicted Protein Localization Annotations	1.0	null
Urinary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.062
GATA2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.4044
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16711
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.91594
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.03259
Osteophyte	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.661
Hip	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.902
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
trans-Golgi network transport vesicle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.755
female reproductive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.46766
COV362	CCLE Cell Line Gene CNV Profiles	1.0	1.43161
SK-MEL-31	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2396
GSE223893_2_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Alate adult	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.512
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38252
egg	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.316951
TAL1::TCF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.75
Clathrin coat of trans-Golgi network vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.756
ZNF410	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.4524
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.745
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.084
intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.063087
GSE235550_2_v_0_hspa9_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Olfactory glomerulus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.966
Musculoskeletal system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
MET_knockdown_254_GSE38343	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.43406
GSE48812_2_v_1_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52726
CMK115	CCLE Cell Line Gene CNV Profiles	1.0	1.73114
an3ca	HPA Cell Line Gene Expression Profiles	1.0	1.34908
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.70393
prostate gland cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064662
19567819-SuppTable1	GeneSigDB Published Gene Signatures	1.0	null
POLR2A_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE196259_2_v_3_gcm1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TBX18	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.4184
large intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.070431
rectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.099535
GSE221327_10_v_2_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
Prostate cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.238
g8	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.725
gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.049871
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.365
Nectar	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.786
MITF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.3718
ZNF416	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8348
EFO21	CCLE Cell Line Gene CNV Profiles	-1.0	-2.00399
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.936518
organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Plastid inner membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.887
SNU5	CCLE Cell Line Gene CNV Profiles	1.0	1.59741
RARA::RXRG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.2109
GSE202434,GSE202438_2_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCIH1703	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36699
h5	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.679
GSE130401_6_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE212330_1_v_3_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Musculoskeletal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.161
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.085
hsa-miR-298	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
gastrointestinal tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.058704
GSE148657_2_v_0_cd44_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HCC89	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2417
Caryopsis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.072
A-253 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.649
GATA4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.4604
intracellular membrane-bounded organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
HOS	CCLE Cell Line Gene CNV Profiles	1.0	2.00699
THRB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	56.7746
spermatocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.20872
GSE184087_4_v_1_tert_human	RummaGEO Gene Perturbation Signatures	-1.0	null
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.25693
Gonadal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.127
GSE240386,GSE242143_8_v_4_morc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GCM2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	23.2421
HCC44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.75805
light-harvesting complex, core complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.061
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02354
Lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.821
ESR2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.1003
lm1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.199
GSE147876,GSE147877_4_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Male reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.331
Tic complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.891
SW 780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.904099
GSE202434,GSE202438_7_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
colorectal adenocarcinoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.118873
KE39	CCLE Cell Line Gene CNV Profiles	-1.0	-1.64453
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.05682
gastrointestinal cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079415
ovary	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.078415
prostate gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.073951
H zone	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.705
15355895-Table2a	GeneSigDB Published Gene Signatures	1.0	null
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055998
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.936518
ml3	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.596
AP-1 adaptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.756
LUDLU1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37667
ONCODG1	CCLE Cell Line Gene CNV Profiles	1.0	2.36415
Prostate epithelium cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.524
Anal plate	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.705
GSE216988,GSE216989_0_v_1_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
XRCC2-RAD51D complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.727
Disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
Melanoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.462
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.827
peripheral t-cell lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.402692
LOX-IMVI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.974414
GSE147876,GSE147877_2_v_10_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Primary immunodeficiency disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.254
m90	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.79
Chloroplast inner membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.887
IGR1	CCLE Cell Line Gene CNV Profiles	1.0	1.69375
Husk	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.094
Prostate Carcinoma	DisGeNET Gene-Disease Associations	1.0	null
GSE223893_11_v_10_setd2_human	RummaGEO Gene Perturbation Signatures	1.0	null
Woronin body	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.644
SOX15	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.12
EB1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.0242
gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.229839
Spermatocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.473
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.925078
retromer, cargo-selective complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.22
plant-type vacuole membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.659
Type III polyketide synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.505
Immune system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.14
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.875435
GSE130401_1_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
sp95	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.653
jr8	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.556
intracellular organelle	COMPARTMENTS Text-mining Protein Localization Evidence Scores	1.0	0.042146
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.974414
GSE236486_1_v_0_arnt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
BL-3 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.613
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.265
intracellular organelle	LOCATE Predicted Protein Localization Annotations	1.0	null
Root	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.723
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28872
Stomach cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.169
17709385-Table1	GeneSigDB Published Gene Signatures	1.0	null
SK-BR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04198
GSE206516,GSE206518_6_v_7_ptdss2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
reticulosarcoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.635921
GSE80098,GSE80366_0_v_8_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Anthrax disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.021
reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.045997
colorectum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.071131
FU97	CCLE Cell Line Gene CNV Profiles	1.0	1.52749
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.37
GSE249098_1_v_0_mthfd1l_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE193157_0_v_1_chloroquine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE80098,GSE80366_0_v_5_progesterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.214975
GSE205729,GSE205731_2_v_0_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Secondary Malignant Neoplasm Of Lymph Node	DisGeNET Gene-Disease Associations	1.0	null
intracellular part	LOCATE Predicted Protein Localization Annotations	1.0	null
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.83238
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	2.20946
Nuchal ligament	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.525
HCC1359	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.904099
epithelioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.366754
Midgut epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.639
POLR2A	ENCODE Transcription Factor Targets	1.0	null
PMC7818749-12931_2021_1617_MOESM1_ESM.xlsx-TBX4-SYMBOL_TBX4	Rummagene Transcription Factor Associations 2026	1.0	null
organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.354131
lymphatic system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.560616
ac2	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.285
viscus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05231
Bpe	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.574
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055996
CHD2_02_196	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	2.28011
wm115	HPA Cell Line Gene Expression Profiles	1.0	0.937203
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.50274
GSE178714_6_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
A7 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.816
GSE178714_6_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SNU119	CCLE Cell Line Gene CNV Profiles	1.0	1.33879
GSE235701,GSE261434_2_v_3_enasidenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EOMES	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	32.2932
SREBF1	JASPAR Predicted Transcription Factor Targets	1.0	null
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.044
MDA-MB-157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52862
TFAP4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	31.7186
CX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.976648
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2396
GSE147876,GSE147877_2_v_1_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE221327_8_v_9_clpp_human	RummaGEO Gene Perturbation Signatures	1.0	null
male reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.689226
cutaneous t cell lymphoma	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.462016
Spear	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.833
GSE184087_2_v_1_tert_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CBX3	ENCODE Transcription Factor Targets	1.0	null
Childhood endodermal sinus tumor	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.103
Esophageal carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.161
MGA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.9384
small intestine	HPA Tissue Protein Expression Profiles	1.0	1.36491
colorectal cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.106285
Chloroplast envelope	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.919
ESR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	35.7779
NCCIT cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.849
PKNOX2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	24.2541
HCC1954	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.04198
GSE147876,GSE147877_4_v_3_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null
SKBR3	CCLE Cell Line Gene CNV Profiles	1.0	1.48415
Lymphatic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.015
internal male genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.747515
Eisosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.132
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.953785
Lymphatic system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.035
GSE175787_5_v_0_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE175787_13_v_7_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
Gracilis muscle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.714
SNU308	CCLE Cell Line Gene CNV Profiles	-1.0	-1.52259
GSE131649_4_v_5_hemin_human	RummaGEO Drug Perturbation Signatures	1.0	null
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.973628
Connective tissue disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	0.599
GSE147876,GSE147877_4_v_8_enzalutamide_human	RummaGEO Drug Perturbation Signatures	1.0	null