association	dataset	threshold value	standardized value
amygdaloid complex_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.09803
embryonic stem no feeder	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.46784
GSE143643,GSE143644_4_v_5_hdac3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lower respiratory tract disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.37
Perturb_13288_KD_Lnc956_SRP345092	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	15.3098
GSE158595_0_v_1_e4f1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FOXL1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.6785
TICRR	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.41352
paraventricular nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.04582
GSE120200,GSE127269_1_v_2_asxl1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE71468,GSE76476_2_v_1_rbfox1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-X585-3026-SM-46MWF	GTEx Tissue Sample Gene Expression Profiles	1.0	0.884558
GSE205163,GSE205164_3_v_6_znf808_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Gall bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
wt1_00000000_mouse_embryonic_fibroblast_mef_lof_mouse_gpl1261_gse15325	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.577835
COLO 741	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.859591
anion transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
outer SZ in posterosuperior (dorsal) parietal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.07905
whole body	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.225144
forebrain	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.067375
GSE113817_2_v_1_bach1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
EKVX	COSMIC Cell Line Gene Mutation Profiles	1.0	null
BACH1	ENCODE Transcription Factor Targets	1.0	null
Integumentary system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.046
RT112	DepMap CRISPR Gene Dependency	1.0	2.27545
mRNA_NIPBL_20720539	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
KOPN8	CCLE Cell Line Gene Expression Profiles	1.0	2.25277
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-5683-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-XQ3S-2526-SM-4BOOG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.911319
bronchoalveolar system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.065154
NOMO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30939
A498	CCLE Cell Line Gene CNV Profiles	1.0	1.76226
MXI1	ENCODE Transcription Factor Targets	1.0	null
MIR122_Antisense Inhibition_GDS1729_759_mouse_Livers (from C57BL/6 adult males)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
icSARA deltaORF6_54Hour_23365422_GSE33267	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.74017
H3K4me3_Brain Cingulate Gyrus	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCFC1	ENCODE Transcription Factor Targets	1.0	null
NFIC	JASPAR Predicted Transcription Factor Targets	1.0	null
GTEX-WFG7-1226-SM-4LMK2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.840468
L-lysine import across plasma membrane	GO Biological Process Annotations 2023	1.0	null
Heart - Atrial Appendage	GTEx Tissue Gene Expression Profiles 2023	1.0	1.57319
Disease of metabolism	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.338
H3K27me3_kidney epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Rectum adenocarcinoma_READ_TCGA-AF-2690-01A-02R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.298524
HDAC2	ENCODE Transcription Factor Targets	1.0	null
GTEX-U8T8-1126-SM-4DXUE	GTEx Tissue Sample Gene Expression Profiles	1.0	0.842646
GSE216043_11_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27me3_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_14982_KO_Setd1a_SRP330236	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.63471
GTEX-WI4N-1426-SM-3LK7H	GTEx Tissue Sample Gene Expression Profiles	1.0	0.969526
Mitotic fetal germ cell_Fetal gonad_Human	CellMarker Gene-Cell Type Associations	1.0	null
intrinsic component of membrane	GO Cellular Component Annotations 2015	1.0	null
Epiblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.084
CA46	CCLE Cell Line Gene Expression Profiles	1.0	1.38775
H2AFZ_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.28
occipito-temporal gyrus, left, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.998927
parietal neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.2815
Rectum adenocarcinoma_READ_TCGA-EI-6514-01A-11R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_1100_KO_Perk_SRP370072	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Perturb_4651_KO_Tip55_SRP134924	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	4.73869
GSE174498,GSE174500_3_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.64551
POU5F1	ChEA Transcription Factor Targets	1.0	null
OCT4_KD_GDS1824_135_mouse_embryonic stem (ES)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
TAF1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNCA_KO_GDS4153_443_mouse_Striatum - 6 months	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GTEX-R55C-1026-SM-48FCM	GTEx Tissue Sample Gene Expression Profiles	1.0	1.88796
Chloroplast	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.593
496100580_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	5.23931
FB-56-IR20_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.257513
COLO 829	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.956663
Hypothalamus	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.08514
H3K4me3_Stomach Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE198165,GSE198166_6_v_3_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE195786_0_v_1_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-RU72-0011-R8A-SM-2TF61	GTEx Tissue Sample Gene Expression Profiles	1.0	1.25159
HCC44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.96922
Perturb_13257_KO_Pcgf3_SRP115638	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	6.22296
GSE60217_1_v_2_inosine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Adrenocortical carcinoma_ACC_TCGA-OR-A5JD-01A-11R-A29S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Trophoblast stem cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.745
Lung	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
KDM4A	ENCODE Transcription Factor Targets	1.0	null
Kidney renal papillary cell carcinoma_KIRP_TCGA-4A-A93Y-01A-11R-A37K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Olfactory cortex	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.543
Epicotyl	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.719
CAL851	CCLE Cell Line Gene CNV Profiles	1.0	1.35144
Perturb_13259_KO_Pcgf5_SRP115638	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.18697
Cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
GSE174498,GSE174500_2_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NRF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Ebolavirus(ZEBOV)_6day_PBMCs_rhAPCtreated_21987740_GSE24943	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-0.004975
H3K9ac_Skeletal Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Bronchoalveolar system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
FBXO48	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.62576
endometrium_8b	HPA Tissue Sample Gene Expression Profiles	1.0	1.27641
endometrium_5a	HPA Tissue Sample Gene Expression Profiles	1.0	0.908647
H3K4me3_cardiac mesoderm_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-POMQ-1226-SM-3P61F	GTEx Tissue Sample Gene Expression Profiles	1.0	0.860824
C32TG	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18897
Spikelet	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.75
larg	GeneRIF Biological Term Annotations	1.0	null
GSE195559_6_v_1_notch1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE110178_5_v_3_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Lung cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.113
SRF	JASPAR Predicted Transcription Factor Targets	1.0	null
APOD_OE_GDS3913_489_mouse_Cerebellum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Leaf disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.646
precommissural nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.0544
GSE138818_1_v_3_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_BE2C_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
REST_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE89018_1_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
DUSP1_KO_GDS1606_775_mouse_Spleens	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Perturb_10654_KO_Msi2_SRP201802	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.66424
anterior (rostral) cingulate (medial prefrontal) cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.95691
JUND	ENCODE Transcription Factor Targets	1.0	null
GSE133087_1_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ES-WA7 Cells	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	-1.0	-0.955777
CAOV4	DepMap CRISPR Gene Dependency	1.0	4.10284
GSE116810_5_v_4_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE149870_0_v_1_pfn1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8500868-401_2021_2354_MOESM5_ESM.xlsx-GEP_PATZ1-Gene_Symbol_PATZ1	Rummagene Transcription Factor Associations 2026	1.0	null
H2AFZ_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO-320-HSR	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.99752
Umbilical cord cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.519
frontal pole, right, medial aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.23309
Reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.155
GSE150669_0_v_3_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-WFON-2026-SM-4LVMW	GTEx Tissue Sample Gene Expression Profiles	1.0	0.848739
GSE142210_11_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_fibroblast of lung_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
MAZ_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_2013_KO_Blimp1_SRP061216	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.25776
Pervasive developmental disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.287
cation-transporting ATPase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.619
PMC4387713-supp_gad.255984.114_Table_S5.xlsx-S5B-Up_H3K4me3_DPY30_KD-Unnamed_12_AR	Rummagene Transcription Factor Associations 2026	1.0	null
ELK1	JASPAR Predicted Transcription Factor Targets	1.0	null
U118MG	DepMap CRISPR Gene Dependency	1.0	2.04469
Long-projecting GABAergic cell_Brain_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
MDAMB175VII	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.70109
GSE205163,GSE205164_2_v_8_znf808_human	RummaGEO Gene Perturbation Signatures	1.0	null
15256440-tableS1	GeneSigDB Published Gene Signatures	1.0	null
16651409-SuppTable5	GeneSigDB Published Gene Signatures	1.0	null
Perturb_5053_KO_Ring1/Rnf2_SRP078684	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-11.6809
VWA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03213
GSE94849_3_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
FOXP1_01_88	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	1.38191
polysensory temporal cortex (area 22p)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.58469
posterior (caudal) superior temporal cortex (area 22c)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.13066
midbrain raphe nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.67138
A427	DepMap CRISPR Gene Dependency	1.0	2.98857
SOCS3_DELETION_GDS1254_80_mouse_ES (embryonic stems cells)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Primary cell wall	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.603
outer CP in (rostral) midinferior temporal cortex (area 36)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.980529
H3K36me3_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Leaf epidermis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.324
DICER1_KO_GDS4504_586_mouse_bone marrow granulocyte-macrophage progenitors	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
SCA1_Knock-in_GDS1756_232_mouse_Cerebellum tissue - 12 weeks of age	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
RCHACV	CCLE Cell Line Gene Expression Profiles	1.0	1.53334
urinary bladder cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.09894
Climbing fiber	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.69
OKAJIMA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.858808
H2AFZ_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE97352_3_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H2AFZ_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE217541,GSE217543_3_v_1_tet1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
pkc	GeneRIF Biological Term Annotations	1.0	null
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.847164
NURR1	MotifMap Predicted Transcription Factor Targets	1.0	null
Perturb_13409_KO_Zeb2_SRP066910	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Thoracic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.11
hippocampus (hippocampal formation)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.03662
Perturb_17334_OE_NANOS3_SRP216951	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-12.1662
GTEX-XBEC-0126-SM-4GIDT	GTEx Tissue Sample Gene Expression Profiles	1.0	0.91679
GSE162087_0_v_1_dexamethasone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
ZNF384	ENCODE Transcription Factor Targets	1.0	null
GSE142210_3_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
postcentral gyrus, left, bank of the central sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.853901
H3K9ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
adult	GeneRIF Biological Term Annotations	1.0	null
PMC9578714-elife-81083-supp2.xlsx-AA_Transporters-Gene_Name_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
PU.1	MotifMap Predicted Transcription Factor Targets	1.0	null
TBP_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE131887_1_v_0_doxycycline_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
liver	GeneRIF Biological Term Annotations	1.0	null
DLX5_Deficiency_GDS4443_355_mouse_E10 embryos	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
MT-CO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05696
inner portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.64944
GTEX-U3ZN-1026-SM-4DXTC	GTEx Tissue Sample Gene Expression Profiles	1.0	0.89162
Thoracic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.124
PMC7941712-40478_2021_1135_MOESM12_ESM.xlsx-Table_S4D_DEG_ST-EPN-RELA-Unnamed_6_RELA	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cortico-medial group, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.888188
striatum_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.70823
RMND5A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16076
H3K4me1_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Reproductive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.911
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5989-11A-01R-1672-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RPMI8402	CCLE Cell Line Gene Expression Profiles	1.0	1.3567
GTEX-REY6-0126-SM-48FDT	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0757
PMC8766486-42003_2021_2990_MOESM3_ESM.xlsx-ST12-Unnamed_8_KLF6	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_choroid plexus epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC2998	COSMIC Cell Line Gene Mutation Profiles	1.0	null
metencephalon	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.104086
GSE178255_2_v_7_tlr4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-UPJH-0126-SM-4IHLL	GTEx Tissue Sample Gene Expression Profiles	1.0	0.892538
Diabetes mellitus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.148
Cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.604
EKC/KEOPS complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.626
H3C1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18998
decreased	GeneRIF Biological Term Annotations	1.0	null
SOX2-19030024-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
animal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.22415
GSE147366_1_v_0_med13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
medial preoptic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.19613
Perturb_5052_KO_Ring1/Rnf2_SRP078684	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.20319
medial subdivision of central nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.42598
nervous system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062136
GSE202603_0_v_2_bhlhe40_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NKX2-5	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.7359
SPIB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	38.5281
GSE164483_2_v_0_venetoclax_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
CADOES1	CCLE Cell Line Gene Expression Profiles	1.0	1.71861
transport	GO Biological Process Annotations 2015	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7315-11A-01R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE180185_7_v_10_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
GSE231720,GSE231724_2_v_0_setd2_human	RummaGEO Gene Perturbation Signatures	1.0	null
EZH2_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09301
Prostate adenocarcinoma_PRAD_TCGA-G9-6348-01A-11R-1789-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
REST	ENCODE Transcription Factor Targets	1.0	null
Perturb_14552_KO_Abcc8_ERP018163	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
female reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE234637_1_v_0_ikzf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
urinary system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05673
TAF1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Histaminergic neuron	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.757
POU3F3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.9167
H3K4me3_CD19 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
TAF6L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.99482
GTEX-X638-0426-SM-47JY2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.844241
HCC1162	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.19512
GTEX-W5X1-2326-SM-3GIL6	GTEx Tissue Sample Gene Expression Profiles	1.0	0.844775
Ischial spine	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.798
GSE240645_3_v_2_u90926_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Skeletal Muscle Female	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	1.0	0.835963
Uterine Carcinosarcoma_UCS_TCGA-QN-A5NN-01A-11R-A28V-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ornithine transport	GO Biological Process Annotations 2023	1.0	null
ADAMTS4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.13612
ATR_knockdown_140_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.12057
mRNA_POU5F1_20526341	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
mRNA_POU5F1_16767105	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Photosystem	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.122
H3K4me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE205976,GSE205978_1_v_0_cep83_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-P4PP-2526-SM-3P61P	GTEx Tissue Sample Gene Expression Profiles	1.0	0.869007
midbrain raphe nuclei	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.09195
CDK4_knockdown_143_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.49395
A172	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.92058
neuro2a	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.23083
basic amino acid transport	GO Biological Process Annotations 2015	1.0	null
19880498-TableS6	GeneSigDB Published Gene Signatures	1.0	null
SNCA_KO_GDS4153_527_mouse_striatum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GTEX-U8T8-1226-SM-4E3IH	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1991
Pancreatic adenocarcinoma_PAAD_TCGA-HZ-8636-01A-21R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CTCF_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HI-7170-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PFKL_OE_GDS1980_203_mouse_dermal fibroblasts	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Hmx3	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.7577
Giant cell tumor cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.82
Nkx3-2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.0863
DUSP1_KO_GDS1606_773_mouse_spleens	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE216043_11_v_6_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE210682_2_v_1_methadone_human	RummaGEO Drug Perturbation Signatures	1.0	null
SRY-25088423-EMBRYONIC GONADS-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GTEX-QXCU-1926-SM-48FE4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.962366
trans-Golgi network transport vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.825
H3K4me3_Brain Mid Frontal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SEC14L5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.35902
MED30	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05068
H3K27me3_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PARP12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06378
genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.056759
globus pallidus, external segment, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.45984
ZR7530	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.84432
posteroventral (inferior) parietal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-2.02899
GSE71674,GSE71676_0_v_2_cbfa2t2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Galectin lattice	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.043
COLO792	DepMap CRISPR Gene Dependency	1.0	2.03935
Leukoencephalopathy with vanishing white matter 5	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.256
Photosystem I	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.804
Endocrine gland cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.127
496100625_FWM_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.45402
Brain Lower Grade Glioma_LGG_TCGA-HT-A74H-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DU-145	COSMIC Cell Line Gene Mutation Profiles	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.845446
GSE68925_1_v_0_fasudil_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GTEX-OIZH-1526-SM-3NB1J	GTEx Tissue Sample Gene Expression Profiles	1.0	1.79126
Prostate adenocarcinoma_PRAD_TCGA-EJ-5517-01A-01R-1580-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
FOXO1::ELK1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.2499
GSE221955_3_v_2_igfbp2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE114553_0_v_1_lhx6_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SAP30	ENCODE Transcription Factor Targets	1.0	null
GTEX-WFG7-1826-SM-3GIL1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.45692
IPC-298	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.33029
Disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
CHD2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE168587,GSE168752_3_v_1_tp53_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
vascular transport	GO Biological Process Annotations 2025	1.0	null
GTEX-WZTO-3026-SM-3NMA2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830972
mediodorsal nucleus of thalamus_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.05954
cellular_component	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
OV7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.847164
GSE138863_3_v_0_disulfiram_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_Neurosphere Cultured Cells Ganglionic Eminence Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Male reproductive organ cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
cell periphery	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
EZH2_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE149010_0_v_5_dars2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Infantile neuronal ceroid lipofuscinosis_Brain_GSE6678	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	2.71249
GSE120612_4_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.65663
RARA::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.913
SK-MEL-2	COSMIC Cell Line Gene Mutation Profiles	1.0	null
MDAMB415	DepMap CRISPR Gene Dependency	1.0	2.91833
GTEX-S95S-1026-SM-4B64M	GTEx Tissue Sample Gene Expression Profiles	1.0	0.925228
GSE217685_0_v_1_ddx20_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Breast disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.125
umbilical cord cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.61699
Sepal	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.547
DAOY cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.528
orbital frontal cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.02506
GSE199660_1_v_0_secretin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE182680,GSE182683_5_v_9_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
FCSK	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.50164
NCI-H596	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.956663
dorsal thalamus_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.889907
anterior (rostral) cingulate (medial prefrontal) cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.77333
Artery - Coronary	GTEx Tissue Gene Expression Profiles 2023	1.0	4.25579
TAF11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.40519
ChIP_ZIC3_20872845	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-85-A4QR-01A-11R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-R55F-1726-SM-2TF4R	GTEx Tissue Sample Gene Expression Profiles	1.0	0.839982
amygdaloid complex_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.00836
primary auditory cortex (core)_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.919976
MEL-JUSO	COSMIC Cell Line Gene Mutation Profiles	1.0	null
ventrolateral prefrontal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.904695
MAFA	MotifMap Predicted Transcription Factor Targets	1.0	null
True leaf	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.789
GSE240027,GSE240030_5_v_2_atrx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
pontine raphe nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.01517
endoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.356686
Perturb_14533_KO_Ptf1a/Foxa2_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Abnormalities, Drug-Induced	CTD Gene-Disease Associations	1.0	1.18259
CREB1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inner CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.897372
GTEX-UTHO-2726-SM-4JBH9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01241
SIX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.4901
NUDUL1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47067
PANC 05.04	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.893677
GSE158431_2_v_3_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE98579_0_v_1_tfam_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
IZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.870497
gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
III, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.3447
GSE179880_2_v_5_e2f4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE179880_1_v_5_e2f4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TUBE1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.15077
PMC12356745-12015_2025_10896_MOESM2_ESM.pdf-885-ENSG00000189299_FOXR2	Rummagene Transcription Factor Associations 2026	1.0	null
inferior olive, dorsal nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.75502
PMC4633447__F4	PFOCR Pathway Figure Associations 2023	1.0	null
VMRCLCP	CCLE Cell Line Gene CNV Profiles	1.0	1.87309
Cognitive disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.319
amygdaloid complex_12 pcw_F_12960	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.970068
Carcinoma	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
MEWO	COSMIC Cell Line Gene Mutation Profiles	1.0	null
amygdaloid complex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.06425
Drug-Induced Liver Injury	CTD Gene-Disease Associations	1.0	1.12771
SHROOM2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03109
Diarrhea	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.037
Amino acid and oligopeptide SLC transporters	Reactome Pathways 2014	1.0	null
GTEX-RTLS-2326-SM-46MUH	GTEx Tissue Sample Gene Expression Profiles	1.0	0.859928
liver	HPA Tissue Gene Expression Profiles	-1.0	-0.968552
GSE89018_12_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Venom gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.554
anterior orbital gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.33646
Colorectal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.003
PHGDH_KO_GDS2874_125_mouse_embryonic head tissue	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE216043_11_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hippocampus (hippocampal formation)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.42568
mRNA_SFPI1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5702-01A-11R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RBBP5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.212851
Superior vestibular nucleus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.124
Perturb_9446_KO_STK25_SRP356933	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	11.7095
MCF10F	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.7903
GSE195514_0_v_1_stk25_human	RummaGEO Gene Perturbation Signatures	1.0	null
Amino acid transport across the plasma membrane	Reactome Pathways 2024	1.0	null
GSE186810,GSE186813_7_v_5_furin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.184
PCDHB9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03121
Pancreatic adenocarcinoma_PAAD_TCGA-IB-7649-01A-11R-2156-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE216043_7_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-XMD1-0011-R8A-SM-4AT48	GTEx Tissue Sample Gene Expression Profiles	1.0	1.28526
GSE126777_0_v_1_otub1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Nerve Degeneration	CTD Gene-Disease Associations	1.0	1.01587
Tripartite attachment complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.561
GSE89018_6_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-XAJ8-0326-SM-47JYI	GTEx Tissue Sample Gene Expression Profiles	1.0	1.55722
GSE102675_3_v_0_atf3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Viscus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
Lung squamous cell carcinoma_LUSC_TCGA-34-8456-01A-21R-2326-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
spinal cord	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05498
PF382	CCLE Cell Line Gene Expression Profiles	1.0	2.1376
LOU-NH91	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.07841
KYSE450	CCLE Cell Line Gene CNV Profiles	1.0	1.73276
GTEX-P4QT-2426-SM-3NMCL	GTEx Tissue Sample Gene Expression Profiles	1.0	0.947886
H2AFZ_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POU5F1-18347094-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE133763_0_v_1_chd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12209767-bcd-25-0099_supplementary_table_s2_suppst2.xlsx-C_DEGs_RNA-seq-Supplementary_table_S2C_List_of_differentially_expressed_genes_in_IGHUND_vs_IGH_GCB_MB2_DE_DLBCL_HGBCL-DH-BCL2_-BCL6_BCL6	Rummagene Transcription Factor Associations 2026	1.0	null
15856041-Figure1	GeneSigDB Published Gene Signatures	1.0	null
Perturb_8996_KO_KMT2C_SRP286164	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-7.05063
GSE196671_5_v_1_obox4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SBC5	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3869
H3K4me3_B cell_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-YB-A89D-01A-12R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mRNA_NANOG_16767105	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
trophoblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.416576
COQ8B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03976
RTRAF	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07258
PMC11214527-mmc5.xlsx-NFATC3-gene_NFATC3	Rummagene Transcription Factor Associations 2026	1.0	null
preoptic	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.868511
Brain Lower Grade Glioma_LGG_TCGA-DU-A76K-01A-11R-A33Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE226316_3_v_2_tead2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF3	ChEA Transcription Factor Targets	1.0	null
GSE173911,GSE173917_0_v_1_morc3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
EBC-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.33875
APLP2_KO_GDS4414_371_mouse_prefrontal cortex	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
POLR2A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Photosynthetic membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.159
single-organism process	GO Biological Process Annotations 2015	1.0	null
GSE147366_3_v_4_med13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SETDB1-19884257-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Prenatal Injuries	CTD Gene-Disease Associations	1.0	1.1122
cortico-medial group, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.845369
Rheaume et al.Nat Commun.23_Retina_Mouse	CellMarker Gene-Cell Type Associations	1.0	null
Ectoplacental cone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.616
FTC-133	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GTEX-XUW1-0226-SM-4BOOS	GTEx Tissue Sample Gene Expression Profiles	1.0	1.29744
GSE158431_5_v_7_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_13435_KD_Zc3h13_SRP098937	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-7.51146
posterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.1243
GSE131588,GSE131690_1_v_0_setd2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Condensed nuclear chromosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.488
Transport of inorganic cations/anions and amino acids/oligopeptides	Reactome Pathways 2014	1.0	null
GSE165122_2_v_3_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
HID1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.08108
COLO 800	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.64428
transport across blood-brain barrier	GO Biological Process Annotations 2023	1.0	null
GTEX-X4XX-0011-R8B-SM-46MWM	GTEx Tissue Sample Gene Expression Profiles	1.0	1.47049
GTEX-QDT8-2526-SM-48TYX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.939085
SETDB1_KO_GSE40296_7_mouse_brain (telencephalon)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
amygdaloid complex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.09798
PrefrontalCortex	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.03912
REDD1_Repression_GDS3558_73_human_Blood Myeloid Cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
TKKK	DepMap CRISPR Gene Dependency	1.0	2.03659
GTEX-XV7Q-1426-SM-4BRWA	GTEx Tissue Sample Gene Expression Profiles	1.0	0.95412
GTEX-XV7Q-1526-SM-4BRWB	GTEx Tissue Sample Gene Expression Profiles	1.0	1.30859
Plexiform Leiomyoma	DisGeNET Gene-Disease Associations	1.0	null
nucleus of Darkschewitsch, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.3785
basic amino acid transmembrane transporter activity	GO Molecular Function Annotations 2025	1.0	null
GTEX-Q2AG-0011-R1A-SM-2HMJI	GTEx Tissue Sample Gene Expression Profiles	1.0	0.825137
KLF11	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	154.28
PSMD12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.33467
EZH2_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_8941_Mut_RB1_SRP220467	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
GTEX-XLM4-0011-R3B-SM-4AT6E	GTEx Tissue Sample Gene Expression Profiles	1.0	0.88361
H3K4me3_skeletal muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_H7_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_1426_OE_Mir10a_ERP106848	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.45387
TFAP2E	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	52.9642
GTEX-WZTO-0011-R8A-SM-4E3II	GTEx Tissue Sample Gene Expression Profiles	1.0	1.50463
SW1271	CCLE Cell Line Gene CNV Profiles	1.0	1.70933
GSE156923_0_v_3_rbmx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE85302_0_v_1_kat6a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
rostral group of intralaminar nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	3.26486
mediodorsal nucleus of thalamus_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.924782
Coronavirus infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.126
Psychotic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.148
Respiratory system	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GSE89018_11_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-T6MO-1526-SM-4DM57	GTEx Tissue Sample Gene Expression Profiles	1.0	1.52813
GSE89018_11_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Autism	DisGeNET Gene-Disease Associations	1.0	null
gonad	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
C1orf21	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.48872
caudal ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.20833
rostral group of intralaminar nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.92215
posteroventral (inferior) parietal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.82477
mRNA_SOX2_16767105	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
E2F1	ChEA Transcription Factor Targets	1.0	null
H3K4me3_Neurosphere Cultured Cells Cortex Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE181521_0_v_1_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
SP1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAL-85-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.11132
KINGS1	DepMap CRISPR Gene Dependency	1.0	2.11646
Autism spectrum disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.238
Prostate adenocarcinoma_PRAD_TCGA-HC-7821-01A-12R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NR4A2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.3989
L-ornithine transmembrane transport	GO Biological Process Annotations 2023	1.0	null
Amniotic cavity	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.643
SNU-175	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Connective tissue disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.017
mediodorsal nucleus of thalamus_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.19437
SPI1-20176806-THIOMACROPHAGE-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Rectum adenocarcinoma_READ_TCGA-F5-6864-01A-11R-1928-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EP300	ENCODE Transcription Factor Targets	1.0	null
brains	GeneRIF Biological Term Annotations	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-FC-7961-01A-11R-A29R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE202434,GSE202438_10_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Epilepsy	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.057
PMC11092745-media-2.xlsx-cGEP_Associated_Genes_Ranked-SOX4_TOX2_SOX4	Rummagene Transcription Factor Associations 2026	1.0	null
SMAD1-26771354-MESC-MOUSE-STEM	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05833
GTEX-T5JW-2026-SM-4DM63	GTEx Tissue Sample Gene Expression Profiles	1.0	1.25129
GTEX-S4UY-0926-SM-4AD6O	GTEx Tissue Sample Gene Expression Profiles	1.0	1.32744
Perturb_13790_KO_Zeb2_SRP066910	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE120413,GSE120447_0_v_2_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
fetus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.109853
Respiratory system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.121
Perturb_10638_Mut_Cryaa_SRP104440	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.46334
accumulation	GeneRIF Biological Term Annotations	1.0	null
PMC8390679-41467_2021_25186_MOESM5_ESM.xlsx-ISL1-Unnamed_5_ISL1	Rummagene Transcription Factor Associations 2026	1.0	null
HCT-15	COSMIC Cell Line Gene Mutation Profiles	1.0	null
17660535-TableS4a	GeneSigDB Published Gene Signatures	1.0	null
GSE199874_4_v_5_gabpb1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Moh	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.72
striatum_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.12035
H3K4me3_fibroblast of mammary gland_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE65617_5_v_3_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SOX2-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
CHD2	ENCODE Transcription Factor Targets	1.0	null
icSARA deltaORF6_48Hour_23365422_GSE33267	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.29666
t67-small-intestine_consensus	MoTrPAC Rat Endurance Exercise Training	1.0	1.98086
zona incerta, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.86131
Clathrin vesicle coat	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.899
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-FM-8000-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8437-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE57875_1_v_0_hnrnpl_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TCTN3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.03258
uterine epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.613361
skeletal muscle	HPA Tissue Gene Expression Profiles	-1.0	-0.968552
lateral hypothalamic area, anterior region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.56016
Pericarp	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.969
GSE133087_1_v_0_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE150669_2_v_1_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Male reproductive organ cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.014
Perturb_13797_KO_Phc1_SRP096055	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Disease of anatomical entity	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
Liver hepatocellular carcinoma_LIHC_TCGA-CC-A7IJ-01A-11R-A33R-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
female reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
ChIP_H3K36me3_18692474_mouseESC	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
OCI-AML3	COSMIC Cell Line Gene Mutation Profiles	1.0	null
KAT2A	ENCODE Transcription Factor Targets	1.0	null
mRNA_DLX3_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
medial ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.57007
H3K4me3_BE2C_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_4643_KO_Wwc2_SRP151543	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.197
Spinocerebellar ataxia type 18	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.025
EZH2_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
postcentral gyrus, right, bank of the posterior central sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.887795
cerebellar cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.956819
H3K23me2_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE149903_0_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
L-Lysine	DrugBank Drug Targets	1.0	null
GSE128076_1_v_3_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE110178_1_v_3_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Glycoprotein network	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.761
A-Vietnam-1203_CIP048_RG4-2004(H5N1)NS1trunc_7Hour_None_GSE43204	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.09092
GSE137177_2_v_0_folic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE174498,GSE174500_5_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Fetal Death	CTD Gene-Disease Associations	1.0	1.04163
RBE	DepMap CRISPR Gene Dependency	1.0	2.73164
RAN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.28579
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24427
female reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.223906
corneal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.311145
ACTN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02324
GTEX-XUW1-2326-SM-4BOO5	GTEx Tissue Sample Gene Expression Profiles	1.0	1.25847
tissues, cell types and enzyme sources	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
Cationic amino acid transport permease	InterPro Predicted Protein Domain Annotations	1.0	null
H3K4me3_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE96649_1_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_3444_KO_Acsl6_SRP321472	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.39132
endometrium	HPA Tissue Gene Expression Profiles	1.0	1.3093
PMC5889290-koni-07-04-1412909-s001.xlsx-GSC-exo_vs_Fibro-exo_stat_sign-Gene_name_GSC	Rummagene Transcription Factor Associations 2026	1.0	null
ZNF682	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	44.0803
SCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957445
Amino acid transport across the plasma membrane	Reactome Pathways 2014	1.0	null
prostate_4a	HPA Tissue Sample Gene Expression Profiles	1.0	0.95231
GSE123943_4_v_5_sox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
posterior hypothalamic area, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.915635
GSE234637_3_v_0_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
L-ornithine import across plasma membrane	GO Biological Process Annotations 2023	1.0	null
GSE139239_2_v_6_ddr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.00478
GTEX-P4QS-0626-SM-3NMD1	GTEx Tissue Sample Gene Expression Profiles	1.0	0.867957
SVOG-3e cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.027
GSE206870,GSE206872_0_v_2_ascl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE196104,GSE196106_2_v_1_vsx2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
brain	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.067161
GSE174586_0_v_1_slc4a11_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE224294_3_v_2_ngly1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE182680,GSE182683_5_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
YD38	CCLE Cell Line Gene CNV Profiles	-1.0	-1.54156
Thylakoid	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.197
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A2LA-01A-11R-A18C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pyramidal layer of rostral subiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.854641
Perturb_13245_OE_Med24_SRP201000	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-7.09449
OCUM-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.37794
single-organism localization	GO Biological Process Annotations 2015	1.0	null
GSE100732,GSE100733_0_v_1_lrpprc_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE198165,GSE198166_6_v_2_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
primary visual cortex (striate cortex, area V1/17)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.54174
ZSCAN16	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	42.5238
Biceps	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.709
impaired	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_H7_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SLC9A6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11881
GSE97352_1_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Prostate carcinoma	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
Farage	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.48402
CYFIP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07559
GSE216043_7_v_8_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Schizophrenia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.073
H3K4me3_cardiac mesoderm_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
cerebellar cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.986707
Uterine epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.917
CNOT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.40514
21205295-TableS1	GeneSigDB Published Gene Signatures	1.0	null
GSE218060_5_v_3_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
CCRF-CEM	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K27me3_CD4+ CD25+ CD127- Treg Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
outer CP in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.05553
NUGC2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.59053
l-lysine transmembrane transport	GO Biological Process Annotations 2015	1.0	null
primary auditory cortex (core)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.01955
GSE94011_2_v_1_pias3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.53437
GSE131887_5_v_3_doxycycline_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D1FED24h_vs_D1FAST24h_259_AR-DE-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
organic substance transport	GO Biological Process Annotations 2015	1.0	null
Rectum adenocarcinoma_READ_TCGA-AG-3731-01A-11R-1736-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EGR4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	120.703
RI1	CCLE Cell Line Gene Expression Profiles	1.0	1.56159
GSE116810_5_v_1_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MYC-19030024-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	1.0	2.60034
ep16	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.98
GTEX-N7MT-0011-R8a-SM-2I5GU	GTEx Tissue Sample Gene Expression Profiles	1.0	0.933641
L-arginine transmembrane transporter activity	GO Molecular Function Annotations 2025	1.0	null
RPL17	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.46137
H3K4me3_Adipose Derived Mesenchymal Stem Cell Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE162739_8_v_1_bap1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
primary auditory cortex (core)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.963362
POU5F1-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE116580_0_v_1_smug1_human	RummaGEO Gene Perturbation Signatures	1.0	null
NANOG-18692474-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Efflux pump complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.236
striatum_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.877315
Perturb_2014_KO_Xbp1_SRP061216	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
EJM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.908119
H3K4me3_cardiac muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
LU99	DepMap CRISPR Gene Dependency	1.0	2.26693
GSE169152_5_v_6_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-S7SE-0011-R8A-SM-2XCDG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.81746
GSE210870_0_v_2_snai1_human	RummaGEO Gene Perturbation Signatures	1.0	null
HEC59	CCLE Cell Line Gene Expression Profiles	-1.0	-1.52697
GTEX-X15G-1626-SM-3NMB3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02728
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_fibroblast of villous mesenchyme_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_8908_KD_CCDC144NLAS1_SRP135858	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE137914_0_v_3_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE228894_0_v_2_rnmt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
occipital pole, left, lateral aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.55621
cerebellar cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.98789
CAD cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.75
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QT-A5XJ-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-HM-A3JK-01A-11R-A32Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-XXEK-0526-SM-4BRWD	GTEx Tissue Sample Gene Expression Profiles	1.0	2.39807
GSE127790_6_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
VZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.26452
Malignant astrocytoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.091
ZNF274	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.0699
primary motor-sensory cortex (samples)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.56228
transport	GeneRIF Biological Term Annotations	1.0	null
SENP6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06297
MZ in rostral midinferior temporal cortex (area 36)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.40344
GTEX-U3ZM-1626-SM-4DXSK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.917514
hippocampus (hippocampal formation)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.05628
GSE168697_0_v_1_wdr6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC7608835-aba3058_Table_S5.xlsx-RING1B_EWS-FLI1_ACTIVATED-RING1B_EWSR1-FLI1_activated_genes_FLI1	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_4671_KO_Chaf1a_SRP194975	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Sarcoma_SARC_TCGA-DX-A7EM-01A-11R-A36F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.63316
GSE113817_0_v_1_bach1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CEBPB	ENCODE Transcription Factor Targets	1.0	null
Flag leaf	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.684
A-CA-04-2009(H1N1)MA_Day1_22532695_GSE36328	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.4421
GTEX-XAJ8-0626-SM-47JY4	GTEx Tissue Sample Gene Expression Profiles	1.0	0.948591
GSE125219,GSE125221_5_v_8_arid1a_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
zygote	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.131754
cation transmembrane transport	GO Biological Process Annotations 2015	1.0	null
HCC38	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.47209
Congenital aphakia	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.045
H3K27me3_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1436	COSMIC Cell Line Gene Mutation Profiles	1.0	null
VZ in ventromedial extrastriate cortex (VP)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.3344
H3K4me3_Brain Inferior Temporal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
monovalent	GeneRIF Biological Term Annotations	1.0	null
PITPNB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08941
HCC1428	CCLE Cell Line Gene CNV Profiles	-1.0	-2.00315
MYBL2-22936984-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.932865
Perturb_5108_KO_Dax1_SRP309688	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-11.4833
TULP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.39751
arginine transmembrane transport	GO Biological Process Annotations 2015	1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-BT-A20W-11A-11R-A14Y-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
transporter activity	GO Molecular Function Annotations 2015	1.0	null
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-4865-11A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
YEATS2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.63226
Liver	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.07045
GTEX-Q2AG-0326-SM-48U1O	GTEx Tissue Sample Gene Expression Profiles	1.0	1.22136
TTT complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.753
PMC8987207-DataSheet_1.xls-TF_targets_Fig_2A-E2A_DN3_ChIP-seq_TCF3	Rummagene Transcription Factor Associations 2026	1.0	null
RUNX2	ChEA Transcription Factor Targets	1.0	null
Jejunal mucosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.615
LASV_FML29_24hr_24069471_GSE41300	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.66645
GSE160373_8_v_7_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
eyelid	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.317315
blastula	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.331927
H3K4me3_WI38_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A29W-06A-11R-A18U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE239578_0_v_7_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Nfe2l2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	28.9366
cerebellar cortex	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.232599
MDAMB134VI	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.09728
TC32	DepMap CRISPR Gene Dependency	1.0	3.38645
GSE140997_2_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K9ac_Fetal Lung	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE202434,GSE202438_9_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.87738
EVSA-T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84382
IRF8	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1884
cornea	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.178236
L-lysine transmembrane transport	GO Biological Process Annotations 2025	1.0	null
H3K27me3_Adult Liver	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
IM-95	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Inherited metabolic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.233
GSE125219,GSE125221_3_v_0_arid1a_human	RummaGEO Gene Perturbation Signatures	1.0	null
Vestibular nucleus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.812
COLO 794	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.832399
Perturb_1218_KO_Zbtb7a/Zfp580_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE167218_1_v_0_hoxd12_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DNAJC8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.48755
Sarcoma_SARC_TCGA-X6-A7WB-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_6968_KD_Dnmt3a_SRP075146	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-16.8854
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06917
dorsal thalamus_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.63241
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-R55E-0011-R9A-SM-2TC6C	GTEx Tissue Sample Gene Expression Profiles	1.0	0.906645
ZIC3-20872845-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Endosperm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.313
medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.64653
GSE139120_1_v_0_urod_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Apoplast	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.29
transmembrane transport	GO Biological Process Annotations 2015	1.0	null
GTEX-P4PP-2026-SM-3P61N	GTEx Tissue Sample Gene Expression Profiles	1.0	1.56328
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_9793_KD_FOXO1_SRP192099	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.68897
15834136-Table3	GeneSigDB Published Gene Signatures	1.0	null
GTEX-QVUS-0011-R8A-SM-3GAD7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.54512
lateral ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.22443
721_B_lymphoblasts	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.883705
hcat1	GeneRIF Biological Term Annotations	1.0	null
H3K4me3_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
vascular transport	GO Biological Process Annotations 2023	1.0	null
ventrolateral prefrontal cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.11108
SNU-1040	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K4me3_fibroblast of pulmonary artery_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE151612_0_v_2_pracinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
mucosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.076582
GTEX-QCQG-1326-SM-48U24	GTEx Tissue Sample Gene Expression Profiles	1.0	0.983295
Perturb_4573_KO_Pwwp2a/Pwwp2b_SRP255880	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.89301
GSE169152_3_v_1_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE179002_4_v_1_caprin1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE120370_4_v_1_thrombin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
orbital frontal cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.881335
GTEX-TKQ2-0926-SM-4DXU5	GTEx Tissue Sample Gene Expression Profiles	1.0	3.11922
H3K4me3_Breast Myoepithelial Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
RREB1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	226.0
GSE120612_7_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Membrane attack complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.376
caudal presubiculum (postsubiculum)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.937535
CTCF_H1-hESC_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE186647,GSE217287_1_v_3_hnrnpc_human	RummaGEO Gene Perturbation Signatures	1.0	null
CREB1	ENCODE Transcription Factor Targets	1.0	null
GSE240027,GSE240030_5_v_4_atrx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_fibroblast of villous mesenchyme_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cerebral hemisphere	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.079179
GSE126345_2_v_3_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.14426
VCAP	DepMap CRISPR Gene Dependency	1.0	2.20397
GTEX-P78B-1926-SM-3P616	GTEx Tissue Sample Gene Expression Profiles	1.0	0.91718
primary visual cortex (striate cortex, area V1/17)_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.956141
Perturb_9485_KD_Appbp2_SRP359770	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.891
neuron	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.062156
sirolimus_homo sapiens_gpl6244_gse15703	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
plasma	GeneRIF Biological Term Annotations	1.0	null
mRNA_RXRA_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
H3K4me3_H1 BMP4 Derived Trophoblast Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
PPARG	JASPAR Predicted Transcription Factor Targets	1.0	null
placental cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.592444
GTEX-XMD1-0826-SM-4AT52	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01238
GSE180185_4_v_10_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205163,GSE205164_3_v_4_znf808_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ZNF786	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05363
H3K9ac_Breast Myoepithelial Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
lateral ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.06828
NCI-H1930	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02454
anion transmembrane transport	GO Biological Process Annotations 2015	1.0	null
limbic system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.093131
Perturb_17418_KO_Myd88_ERP115704	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-9.53083
GSE147240_3_v_7_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE153137,GSE153140_2_v_1_mettl5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SP4_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Breast Cancer_Mammary Gland Tissue_GSE3744	GEO Signatures of Differentially Expressed Genes for Diseases	-1.0	-2.79184
cerebellar cortex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.827458
TBP_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_neural cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
telencephalon	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.075382
Prostate adenocarcinoma_PRAD_TCGA-VP-A87C-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
KAT2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
amygdaloid complex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.65742
GSE153871_1_v_3_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Cell type cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FAST48h_vs_D2REFED4h_641_AR-D-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Autoimmune disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.05
H3K4me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H2AFZ_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Hepatobiliary system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.028
E2F7	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.2784
RHBDL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34122
H3K4me3_cardiac muscle cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_10228_KO_Nfat5_SRP337224	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-9.23721
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.912956
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma_DLBC_TCGA-FF-8041-01A-11R-2213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Brush border membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.759
ETV4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00587
GSE234637_1_v_0_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Pons	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.757
male reproductive gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
superior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.965562
pou5f1_16518401_mesc_lof_mouse_gpl1261_gds1824	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-2.35767
viscus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052357
PDE10A_KO_GDS4542_292_mouse_hippocampus	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Perturb_4872_KO_EZH1/EZH2_SRP095403	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
Lung squamous cell carcinoma_LUSC_TCGA-NK-A5D1-01A-11R-A26W-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SLC25A28	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30852
Amino acid transport complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.709
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
passive	GeneRIF Biological Term Annotations	1.0	null
morphine_mus musculus_gpl6246_gse17731	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Spongiome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.838
SIN3A	ENCODE Transcription Factor Targets	1.0	null
GSE195559_6_v_5_notch1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H4K20me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_15600_KO_Twnk_SRP319510	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
uneven	GeneRIF Biological Term Annotations	1.0	null
GSE97278,GSE97280_2_v_3_nsd2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EGR1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	118.309
GSE130081,GSE130082_5_v_1_neil2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
amygdaloid complex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.841321
l-lysine transport	GO Biological Process Annotations 2015	1.0	null
GTEX-PLZ4-2726-SM-3P61A	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1859
Mood disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.224
Outer membrane protein complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.774
NCIH747	CCLE Cell Line Gene CNV Profiles	1.0	1.47746
SALL4	ChEA Transcription Factor Targets	1.0	null
ECV-304 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.524
CTCF	ENCODE Transcription Factor Targets	1.0	null
NFYA	JASPAR Predicted Transcription Factor Targets	1.0	null
PMC7918644-LSA-2020-00974_TableS2.xlsx-5_SAd2_BD_D-GATA3_GATA3	Rummagene Transcription Factor Associations 2026	1.0	null
H3K36me3_H7_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
including	GeneRIF Biological Term Annotations	1.0	null
H3K4me3_cardiac mesoderm_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Sarcoma_SARC_TCGA-WP-A9GB-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
primary visual cortex (striate cortex, area V1/17)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.914318
GSE187006_0_v_1_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
choroid plexus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.379875
H3K4me3_SK-N-MC_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-QVJO-0011-R8A-SM-447C7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.12556
Perturb_5231_KO_Kmt5c_SRP194976	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE156115_2_v_1_igf2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NELFE_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Catalase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.605
H3K4me3_WERI-Rb-1_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE94814_2_v_3_reck_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AKT1_knockdown_141_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.81019
primary visual cortex (striate cortex, area V1/17)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.17009
H3K4me3_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
SG in dorsolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.956461
ChIP_SALL4_18804426	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
RAB32	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.17114
Plastid	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.599
IGR1	CCLE Cell Line Gene CNV Profiles	1.0	1.41829
IGROV-1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Hematologic cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.076
Perturb_15082_KD_Ehmt1_SRP354984	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-12.9766
hindbrain	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.089037
TCF3-18347094-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
solitary nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.826897
CEBPA-26348894-LIVER-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
basic amino acid transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
CHEK1_knockdown_142_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.0945
H3K27me3_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mRNA_POU5F1_16518401	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
HEXIM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15175
Brain disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.395
COPS4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15546
mediodorsal nucleus of thalamus_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.949191
Plant scale	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.457
nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.044006
15856041-FileS1	GeneSigDB Published Gene Signatures	1.0	null
IZ in dorsomedial extrastriate cortex (V2)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.831431
BAZ2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15677
H3K4me1_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POU5F1-18700969-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE165682_4_v_1_ptbp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-PVOW-0011-R3A-SM-32PKX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.846305
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
Promastigote	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.778
Perturb_9539_KD_Utx_SRP066186	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
amino acid transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
HCC89	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18269
Pancreatic adenocarcinoma_PAAD_TCGA-IB-7891-01A-11R-2204-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC2157	CCLE Cell Line Gene CNV Profiles	1.0	1.50963
DOR 13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.847164
orbital frontal cortex_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.846184
Exodeoxyribonuclease V complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.543
Prostate adenocarcinoma_PRAD_TCGA-YL-A8SF-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Phosphoribosylaminoimidazole carboxylase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.574
GSE89018_6_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MYC	ChEA Transcription Factor Targets	1.0	null
GTEX-S341-1526-SM-4AD6K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05003
Perturb_16594_KO_Xbp1_SRP057879	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.36593
RUNX2-22187159-PCA-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.954645
striatum_4 mos_M_12890	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.841279
SALL4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.83019
urogenital system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064991
SNU-81	COSMIC Cell Line Gene Mutation Profiles	1.0	null
HCC1428	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.990818
transport across blood-brain barrier	GO Biological Process Annotations 2025	1.0	null
GFM1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00349
CDKN3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06708
GSE154767_4_v_5_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_5804_Mut_Adar_SRP098703	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
SG in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.19461
GSE201042_2_v_1_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Specific developmental disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.205
Acute pancreatitis_Pancreas_GSE3644	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.66883
GSE149903_4_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC12518476-10067_2025_7574_MOESM8_ESM.xlsx-Sheet1-Down_regulated_DEGs_of_KD_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_3162_KO_Smarcd3_SRP044338	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
ENTREP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.44507
cisplatin_mus musculus_gpl339_gds3099	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
ventrolateral prefrontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.35024
U2OS	CCLE Cell Line Gene CNV Profiles	1.0	1.5591
GSE186287_1_v_3_ufm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
anion transport	GO Biological Process Annotations 2015	1.0	null
GSE218060_7_v_4_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
uterus	GTEx Tissue Gene Expression Profiles	1.0	1.06753
BECKER	CCLE Cell Line Gene Expression Profiles	-1.0	-2.81492
mediodorsal nucleus of thalamus_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.32469
organic anion transport	GO Biological Process Annotations 2015	1.0	null
GTEX-RU72-2226-SM-46MUE	GTEx Tissue Sample Gene Expression Profiles	1.0	0.849548
BHLHE40_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_4825_KD_Supt6_SRP116356	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.1001
GSE122101,GSE122103_3_v_1_ssu72_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-X261-0011-R8A-SM-4E3I5	GTEx Tissue Sample Gene Expression Profiles	1.0	1.04912
arcuate nucleus of the hypothalamus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.01902
JURL-MK1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.8285
POU5F1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.52072
Perturb_4204_KO_Top1_SRP072888	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.92068
Prostate adenocarcinoma_PRAD_TCGA-J9-A52E-01A-11R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SLC10A4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.11977
Perturb_4205_KO_Top1_SRP072888	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Perturb_5323_KD_Hif1a_SRP386119	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-18.3565
integument	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.340019
FOXD1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.35
H3K27me3_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF700	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.06757
Lung squamous cell carcinoma_LUSC_TCGA-56-7223-01A-11R-2045-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
L-lysine transmembrane transport	GO Biological Process Annotations 2023	1.0	null
organic acid transmembrane transport	GO Biological Process Annotations 2015	1.0	null
head of caudate nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.868993
LIMK2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.02491
organism form	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.283545
GSE126345_9_v_3_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE176008_8_v_3_azacitidine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
respiratory system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053539
OCT4-18692474-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FAST48h_vs_D4REFED48h_750_AR--Gene_Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE244072_10_v_3_tfeb_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Potassium ion-transporting ATPase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.52
Artery disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.094
ovary	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.894435
Weight Loss	CTD Gene-Disease Associations	1.0	1.42047
H2AFZ_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_A549_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE143994_2_v_3_ythdf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-P78B-1826-SM-3P5YX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.983213
MDA-MB-175-VII	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Cotyledon	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.498
H3K4me3_Brain Germinal Matrix	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCC1359	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.894439
sirolimus_mus musculus_gpl1261_gse5332	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Disease by infectious agent	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.543
Perturb_5503_OE_Hras_SRP026484	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	16.5255
GSE168807_6_v_7_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-PWO3-0011-R8A-SM-2I5GD	GTEx Tissue Sample Gene Expression Profiles	1.0	1.34464
Bladder Urothelial Carcinoma_BLCA_TCGA-GD-A3OS-01A-12R-A220-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE171712_0_v_1_scgb1a1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
TE-4	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.92995
outer SZ in dorsomedial parietal cortex (area 7m)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.855742
Central nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.591
TCF3-18467660-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE180525,GSE180528_1_v_0_tbx3_human	RummaGEO Gene Perturbation Signatures	1.0	null
embryonic structure	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.338545
LRRC73	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.12128
ChIP_TCF3_18467660	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GTEX-SIU7-1426-SM-4BRWT	GTEx Tissue Sample Gene Expression Profiles	1.0	1.20329
E2F1-18555785-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Final leaf	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.661
PMC7216265__F1	PFOCR Pathway Figure Associations 2024	1.0	null
BFTC905	CCLE Cell Line Gene CNV Profiles	-1.0	-1.57375
bladder	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.07814
molecules	GeneRIF Biological Term Annotations	1.0	null
Sodium	HMDB Metabolites of Enzymes	1.0	null
L-lysine transmembrane transporter activity	GO Molecular Function Annotations 2025	1.0	null
GSE130401_1_v_0_trametinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF143	ENCODE Transcription Factor Targets	1.0	null
GSE161295_2_v_5_cdk8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE224096_2_v_0_cocaine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Thymus	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	2.2603
GSE122425_1_v_0_nsun2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-U8XE-0126-SM-4E3I3	GTEx Tissue Sample Gene Expression Profiles	1.0	0.919963
SNU449	CCLE Cell Line Gene CNV Profiles	-1.0	-1.8646
GSE128076_1_v_0_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12356745-12015_2025_10896_MOESM2_ESM.pdf-436-FOXR2_FOXR2	Rummagene Transcription Factor Associations 2026	1.0	null
primary motor cortex (area M1, area 4)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.74816
Reproductive organ cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
dorsal thalamus_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.16416
olfactory bulb	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.218398
GSE239578_0_v_3_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
posteroventral (inferior) parietal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.07386
MZ in dysgranular insular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.14513
inner SZ in frontal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.856314
JHH6	CCLE Cell Line Gene Expression Profiles	-1.0	-1.91694
PMC6335596-mmc2.xlsx-RNA-seq_Day_3_GATA6_Het-Genes_significantly_differentially_expressed_between_H9_and_GATA6_4ins_at_day_3_in_RNA-seq_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
Glioblastoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.094
GSE142210_3_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE216043_11_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC8185471-mmc4.xlsx-D2-DEGs_between_SOX15_KO_DPs_and_WT_DPs_cells_at_day_2_padj_0_05_Log2FoldChange_0_5_SOX15_KO_WT_or_Log2FoldChange_-0_5_SOX15_KO_WT_SOX15	Rummagene Transcription Factor Associations 2026	1.0	null
SUDHL8	DepMap CRISPR Gene Dependency	1.0	3.90909
GSE156923_2_v_3_rbmx_human	RummaGEO Gene Perturbation Signatures	1.0	null
High grade glioma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.083
VZ in caudal hippocampal proper	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.59712
GSE198165,GSE198166_6_v_11_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-QVUS-0011-R1A-SM-3GAD2	GTEx Tissue Sample Gene Expression Profiles	1.0	0.879963
GTEX-REY6-2126-SM-48FD9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.26071
mediodorsal nucleus of thalamus_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.52453
DNA recombinase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.046
mRNA_CDX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE220914_1_v_0_zdhhc2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE127790_13_v_2_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
184B5	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.661595
Hepatobiliary disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.044
PMC9270251-mmc2.xlsx-2_Filtered_DEGs_Control_vs_KD_2-Gene_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
A4-FUK	COSMIC Cell Line Gene Mutation Profiles	1.0	null
hsa-miR-889	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
GSE201042_6_v_7_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
vitamin c_mus musculus_gpl6246_gse32994	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GSE216043_10_v_0_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
concluded	GeneRIF Biological Term Annotations	1.0	null
GSE193177_1_v_2_st266_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
ChIP_TCF3_18347094	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE118794_5_v_4_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Ornithine	HMDB Metabolites of Enzymes	1.0	null
KYSE-140	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.908119
L-amino acid transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
GSE139016_3_v_2_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SUPT1	CCLE Cell Line Gene Expression Profiles	1.0	1.87022
purkinje layer	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.887981
RAD21	ENCODE Transcription Factor Targets	1.0	null
PIK3R3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.2195
GTEX-PW2O-1426-SM-48TCD	GTEx Tissue Sample Gene Expression Profiles	1.0	0.87234
H3K4me3_fibroblast of lung_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-XUZC-1626-SM-4BRVP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02518
PMC10901781-41467_2024_46134_MOESM12_ESM.xlsx-Supplementary_Data_9-Supplementary_Data_09_Differential_expressed_genes_in_RUNX1-mutated_AML_RUNX1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE120370_0_v_6_thrombin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
mediodorsal nucleus of thalamus_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.84457
GTEX-TSE9-0011-R8A-SM-3DB7R	GTEx Tissue Sample Gene Expression Profiles	1.0	0.996715
GSE150072,GSE169209_4_v_10_qser1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
USF2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH727	CCLE Cell Line Gene CNV Profiles	-1.0	-2.20402
inner portion of lateral ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.04788
H3K4me3_kidney epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Kidney disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.123
H3K4me3_kidney epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE125211_0_v_1_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
cerebellum	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.108118
H3K4me3_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-T2IS-2026-SM-4DM6W	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0984
H3K4me1_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE131887_5_v_2_doxycycline_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
mRNA_MYOD1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
l-amino acid transport	GO Biological Process Annotations 2015	1.0	null
GSE89018_6_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-GC-A3WC-11A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
endocrine gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053553
GSE125862_2_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-K4-A3WV-01A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Glycosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.676
Cornea Plana	DisGeNET Gene-Disease Associations	1.0	null
TE5	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
GTEX-S341-1026-SM-4AD71	GTEx Tissue Sample Gene Expression Profiles	1.0	1.92502
POLR2A_MEL cell line_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
frontal lobe	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.153721
BMI1	ChEA Transcription Factor Targets	1.0	null
NCI-H2073	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16922
inferior occipital gyrus, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.22196
lingual gyrus, left, striate	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.11335
GSE218580_1_v_3_fentanyl_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Vascular disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.324
SG in posterior frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.26755
PMC8995879-Table_1.xlsx-exome_variants_MAF_0_01-Gencode_34_hugoSymbol_MAF	Rummagene Transcription Factor Associations 2026	1.0	null
HIF1AN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10298
PMC7216265__F1	PFOCR Pathway Figure Associations 2023	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-HZ-A49I-01A-12R-A26U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_9219_KO_Mecp2_SRP056141	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-19.699
HCC1599	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.1185
SG in inferolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.75229
H3K4me2_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Hmx1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.0378
ventrolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.08666
GSE112762,GSE112767_2_v_0_dgcr8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_cardiac mesoderm_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.989944
GSE205976,GSE205978_3_v_0_cep83_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-WWYW-0011-R1A-SM-3TW8G	GTEx Tissue Sample Gene Expression Profiles	1.0	0.848692
GSE216043_7_v_9_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_8994_KD_CCDC144NLAS1_SRP135858	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE110178_1_v_7_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
paraventricular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.925988
Viral infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.338
JUN	JASPAR Predicted Transcription Factor Targets	1.0	null
H2AFZ_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZIC3	ChEA Transcription Factor Targets	1.0	null
germ layer	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.097383
SAT	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.8298
Foxj2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	24.1411
gata1_15860665_megakaryocytes_lof_mouse_gpl1261_gds1245	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.775346
Pancreatic adenocarcinoma_PAAD_TCGA-IB-A5SO-01A-11R-A32O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.17949
GSE223008_7_v_1_calhm6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-HT-8104-01A-11R-2404-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
S100A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.66473
amygdaloid complex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.913725
brain stem	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.078641
GSE81803,GSE81912_2_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE241701_4_v_0_daxx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE112761,GSE112767_2_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BACH1_01_59	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-1.20617
olfactorybulb	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.10442
dorsal thalamus_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.09403
Bladder Urothelial Carcinoma_BLCA_TCGA-GC-A3BM-11A-11R-A22U-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NANOG-18700969-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE198165,GSE198166_5_v_10_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE133763_0_v_2_chd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Bladder Urothelial Carcinoma_BLCA_TCGA-FJ-A871-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
JUND_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
L-ornithine transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
GTEX-T5JC-1926-SM-4DM6Q	GTEx Tissue Sample Gene Expression Profiles	1.0	0.910085
KP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.33878
keratitis	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.690694
Glyoxysome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.866
Trophectoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.103
cuneus, left, striate	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.22388
GSE151494_8_v_3_nrp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_fibroblast of the aortic adventitia_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.054568
GSE140997_10_v_7_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Organ system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.58
REXO4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01692
POU5F1-16518401-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
embryoday6.5	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	0.959223
MYF6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.4505
CNS cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.673
H3K4me1_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
HCC2998	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.20469
GSE169691_1_v_2_saha_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE94849_1_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
cerebral cortex	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.084579
Cardiovascular system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.381
Sartorius	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.675
GSE234637_2_v_0_ikzf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Bundle sheath cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.952
Perturb_6199_KO_Elp3_SRP065804	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
Abnormalities, Multiple	CTD Gene-Disease Associations	1.0	1.02896
hsa-miR-885-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.123298
GSE182680,GSE182683_7_v_8_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE144745_0_v_1_mettl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC8437976-41416_2021_1470_MOESM2_ESM.xls-List_of_MAF_in_SNP_Rectum-Hugo_Symbol_MAF	Rummagene Transcription Factor Associations 2026	1.0	null
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-SOX2_targets_enrichment-Unnamed_39_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
GSE174522_1_v_0_spp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE140997_4_v_8_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
SW13	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-6.00369
SUM 52PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.07953
GSE121246_1_v_0_stat5b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE173810_0_v_1_igf2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
inferolateral temporal cortex (area TEv, area 20)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.1161
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
High-Functioning Autism	DisGeNET Gene-Disease Associations	1.0	null
CPCN	CCLE Cell Line Gene CNV Profiles	1.0	1.58872
GTEX-R55G-1626-SM-48FF4	GTEx Tissue Sample Gene Expression Profiles	1.0	1.25113
GSE131887_1_v_4_doxycycline_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MITF	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.9122
Ejaculatory duct epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.967
GTEX-Q734-1426-SM-48TZQ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05851
DAUDI	CCLE Cell Line Gene Expression Profiles	1.0	3.40822
GSE92434_1_v_0_ebf1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hypothyroidism	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.400826
prostate	HPA Tissue Protein Expression Profiles	1.0	1.18842
GSE149903_4_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205976,GSE205978_2_v_4_cep83_human	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsolateral prefrontal cortex_26 pcw_F_12949	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.898951
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.976096
FOXG1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	18.947
anterior hypothalamic area, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.65816
Prostate adenocarcinoma_PRAD_TCGA-VN-A88I-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
NCI-H522	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE145915_3_v_2_pcm1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
globus pallidus, internal segment, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.02029
TCF3-18467660-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE187006_0_v_2_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC9578714-elife-81083-supp2.xlsx-AA_Transporters-Common_Name_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-DS-A7WH-01A-22R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SNU182	DepMap CRISPR Gene Dependency	1.0	3.5599
H3K27me3_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
outer CP in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.964035
hsa-miR-4433	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
Guard cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.992
EBF3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	45.5309
glandular epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.444115
SMSCTR	DepMap CRISPR Gene Dependency	1.0	4.21688
Neurodegenerative disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.134
PMC10170086-41598_2023_34519_MOESM6_ESM.xlsx-Shee2-The_differentially_expressed_genes_between_the_BARX2_high_and_BARX2_low_group_of_LIHC_patients_BARX2	Rummagene Transcription Factor Associations 2026	1.0	null
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
under	GeneRIF Biological Term Annotations	1.0	null
TCF3-18692474-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GATA-1_KD_GDS1245_81_mouse_megakaryocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
496100594_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	4.26298
PMC7806814-41598_2020_80145_MOESM4_ESM.xlsx-Sheet1-Supplementary_Table_S4_X-linked_genes_differentially_expressed_in_response_to_LPS_in_males_only_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
HT55	COSMIC Cell Line Gene Mutation Profiles	1.0	null
TADA2B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.25204
anterior (rostral) cingulate (medial prefrontal) cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.75668
Bronchus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GSE165647_2_v_3_cry2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Lung disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.324
FOXP2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.7885
GSE116930,GSE116935_1_v_6_hes7_human	RummaGEO Gene Perturbation Signatures	1.0	null
fertilizedegg	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-0.952388
AGS	COSMIC Cell Line Gene Mutation Profiles	1.0	null
neuroblast	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056279
mucous cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.300679
GSE140607_0_v_6_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
MDAMB361	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78264
H3K4me3_cardiac mesoderm_hg19_6	ENCODE Histone Modification Site Profiles	1.0	null
ion transport	GO Biological Process Annotations 2015	1.0	null
H3K4me2_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PEER	CCLE Cell Line Gene Expression Profiles	1.0	1.74304
SW756	DepMap CRISPR Gene Dependency	1.0	2.26113
SAP30_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE205163,GSE205164_5_v_8_znf808_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE151782_6_v_5_aim2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MIEF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.69744
SIN3A_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYBL2	ChEA Transcription Factor Targets	1.0	null
H3K27ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-37-4133-01A-01R-1100-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
lung	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE206870,GSE206872_1_v_5_ascl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
localized	GeneRIF Biological Term Annotations	1.0	null
GSE180185_9_v_10_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_astrocyte of the cerebellum_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K9ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
dorsomedial hypothalamic nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.902706
anterior hypothalamic area, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.33332
KDM4A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
exocrine gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.085956
Perturb_16428_KD_Atf3_SRP327850	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
mRNA_JARID2_20075857	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
cerebral cortical neuron	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.214017
H2AFZ_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE216043_7_v_4_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE140607_5_v_6_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
establishment of localization	GO Biological Process Annotations 2015	1.0	null
plasma membrane	LOCATE Predicted Protein Localization Annotations	1.0	null
Dermatofibroma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.819
cation transport	GO Biological Process Annotations 2015	1.0	null
GSE71529,GSE71558_1_v_0_doxorubicin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
olfactory lobe	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.217139
GSE216043_3_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
vitamin c_homo sapiens_gpl6884_gse16590	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
SNU201	CCLE Cell Line Gene Expression Profiles	-1.0	-1.72875
KALS-1	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.37193
GSE130690,GSE130692_1_v_0_sirt6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_9781_KD_Ctnnb1_SRP321923	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.20225
SF539	COSMIC Cell Line Gene Mutation Profiles	1.0	null
DPH5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07351
GSE94849_7_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
cell	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
mRNA_SOX2_17515932	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
blastocysts	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	1.07371
anterior (rostral) cingulate (medial prefrontal) cortex_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.02697
Acute Myeloid Leukemia_LAML_TCGA-AB-2849-03A-01T-0734-13	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
tissues, cell types and enzyme sources	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.221061
ZNF528	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.0162
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06917
TGFBR2_KO_GDS5008_282_mouse_Embryonic palatal mesenchymal cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE126345_4_v_3_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CREB3L4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.1565
cellular_component	LOCATE Predicted Protein Localization Annotations	1.0	null
GSE140936,GSE140938_0_v_1_slfn11_human	RummaGEO Gene Perturbation Signatures	1.0	null
corneal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.55945
NEK8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.33226
cat1	GeneRIF Biological Term Annotations	1.0	null
GTEX-NL4W-0011-R8a-SM-2I3G4	GTEx Tissue Sample Gene Expression Profiles	1.0	1.14697
GTEX-QVJO-0011-R10A-SM-2S1QJ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.834039
smoothmuscle_8a	HPA Tissue Sample Gene Expression Profiles	1.0	1.05189
POLR2A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
olfactory cortex	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.985425
GSE234637_2_v_0_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
outer SZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.89655
MXI1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cerebellar cortex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.833393
SUPT11	CCLE Cell Line Gene Expression Profiles	1.0	1.421
Poisoning	CTD Gene-Disease Associations	1.0	1.03752
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12767
hippocampus (hippocampal formation)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.48598
NCI-H2030	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69674
EP300_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Supportive connective tissue	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.639
GSE189653,GSE203344_4_v_3_fluoxetine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_fibroblast of lung_hg19_7	ENCODE Histone Modification Site Profiles	1.0	null
amino acid import across plasma membrane	GO Biological Process Annotations 2023	1.0	null
H3K4me3_brain microvascular endothelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE237426_0_v_1_eif4a1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
X	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.21881
GTEX-RU72-0626-SM-46MUI	GTEx Tissue Sample Gene Expression Profiles	1.0	1.13405
Zbtb2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	19.2012
H2AFZ_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NFKB2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	30.832
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ovary	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.055346
Perturb_8945_Mut_RB1_SRP220467	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.09803
GSE126777_3_v_1_otub1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE224969,GSE224971_0_v_5_chtop_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE176008_8_v_5_azacitidine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SNU-C5	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Perturb_14534_KO_Ptf1a/Gata4_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
ZNF524	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.1181
cation transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
GSE181959_1_v_2_dextran_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
ventromedial hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.67766
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_BJ_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-R55E-0011-R8A-SM-2TC66	GTEx Tissue Sample Gene Expression Profiles	1.0	1.12094
GTEX-R55G-1126-SM-48FDG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.32251
Chromophobe adenoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.559
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TP53	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07391
REH	CCLE Cell Line Gene Expression Profiles	1.0	1.46061
Amino acid/polyamine transporter I	InterPro Predicted Protein Domain Annotations	1.0	null
Aleurone layer	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.621
Bladder Urothelial Carcinoma_BLCA_TCGA-K4-A5RI-11A-11R-A28M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Respiratory system	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
cerebellar cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.72029
SPI1	ENCODE Transcription Factor Targets	1.0	null
medial ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.21338
GTEX-N7MS-0011-R1a-SM-2HMJG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.863635
nitrogen compound transport	GO Biological Process Annotations 2015	1.0	null
caudal ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.32058
cell part	GO Cellular Component Annotations 2015	1.0	null
Corpus cardiacum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.507
GSE68155_3_v_2_gpr3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE218580_1_v_0_fentanyl_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE194396,GSE194429_2_v_3_atrx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE178255_1_v_7_tlr4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POU3F1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.5511
HT-29	COSMIC Cell Line Gene Mutation Profiles	1.0	null
caudal prosubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.95869
GSE224096_3_v_0_cocaine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hippocampus (hippocampal formation)_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.33022
GSE123861_1_v_0_sin3a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
RB_Deficiency_GDS2757_644_mouse_Embryonic livers (day 12.5)	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
H3K4me3_cardiac mesoderm_hg19_8	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H1651	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.908119
CITED1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.64327
Head and Neck squamous cell carcinoma_HNSC_TCGA-BA-A4IH-01A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
COVID-19	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.121
esophagus	HPA Tissue Protein Expression Profiles	1.0	1.18842
ZBTB7B	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.8033
PMC12670081-mct-24-0704_supplementary_table_s10_suppst10.xlsx-Supplementary_Table_S10-Supplementary_Table_S10_Differential_expression_of_TFCP2-rearranged_RMS_Vs_Other_RMS_FC_3_padj_0_01_TFCP2	Rummagene Transcription Factor Associations 2026	1.0	null
orbital frontal cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.861149
zona incerta	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.04368
Sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.197
H3K4me2_B cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-U4B1-1526-SM-4DXSL	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830326
GSE124410_2_v_4_stk40_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_K562_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PEBP1_KO_GDS4334_617_mouse_Pancreatic beta cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.169
MAP3K7_knockout_246_GSE34417	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.19829
Lung squamous cell carcinoma_LUSC_TCGA-22-A5C4-01A-12R-A27Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
DUSP1_KO_GDS1606_772_mouse_spleens	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
EB1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.98536
GTEX-XGQ4-2026-SM-4AT6G	GTEx Tissue Sample Gene Expression Profiles	1.0	0.86976
internal female genital organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.322779
SNU213	CCLE Cell Line Gene Expression Profiles	-1.0	-2.21685
HCC366	DepMap CRISPR Gene Dependency	1.0	2.33713
GSE188870,GSE188871_4_v_5_kat7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE147366_3_v_0_med13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H3122	COSMIC Cell Line Gene CNV Profiles	-1.0	-3.7119
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
L-arginine transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
PMC9307901-mmc2.xlsx-S5-GATA6-AS1_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
SLVL	COSMIC Cell Line Gene Mutation Profiles	1.0	null
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
FADU	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32304
496100459_PCx_no dementia_no TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.56346
Cationic amino acid transporter, C-terminal	InterPro Predicted Protein Domain Annotations	1.0	null
DDX51	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06556
GTEX-S32W-1426-SM-4AD66	GTEx Tissue Sample Gene Expression Profiles	1.0	1.87327
Alcoholic ketoacidosis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.451
H3K9ac_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
697	CCLE Cell Line Gene Expression Profiles	1.0	1.82374
PMC9160255-41467_2022_30710_MOESM4_ESM.xlsx-AR_specific_regulated_genes-ENSEMBL_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-WYVS-1726-SM-3NMAY	GTEx Tissue Sample Gene Expression Profiles	1.0	1.91697
Clathrin coat of trans-Golgi network vesicle	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.843
RERFLCAD2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66902
posteroventral (inferior) parietal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.15032
L-Ornithine	DrugBank Drug Targets	1.0	null
GSE140322_0_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.05514
internal male genital organ	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE150072,GSE169209_6_v_9_qser1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-EE-A20H-06A-11R-A18S-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SLC-mediated transmembrane transport	Reactome Pathways 2024	1.0	null
GSE112762,GSE112767_1_v_3_dgcr8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FADU	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.956663
PINK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40739
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24427
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FED48h_vs_D2FAST48h_968_AR-DE-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
mediodorsal nucleus of thalamus_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.21163
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-A6EP-01A-11R-A31N-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
BB-51-DP49_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.30146
ChIP_NR0B1_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GTEX-S4UY-1226-SM-4AD51	GTEx Tissue Sample Gene Expression Profiles	1.0	1.85233
BT474	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35658
H3K4me3_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
substrate-specific transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-39-5021-01A-01R-1443-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
mediodorsal nucleus of thalamus_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.2803
NR1H4::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.7511
GSE153871_5_v_3_cytarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE146072_0_v_1_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
L-ornithine import across plasma membrane	GO Biological Process Annotations 2025	1.0	null
amino acid transport	GO Biological Process Annotations 2023	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-D3-A51R-06A-11R-A266-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE145171_0_v_1_prox1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-U4B1-1426-SM-4DXTX	GTEx Tissue Sample Gene Expression Profiles	1.0	0.830076
localization	GO Biological Process Annotations 2015	1.0	null
HCC2429	DepMap CRISPR Gene Dependency	1.0	4.53668
GLIS1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	47.2541
H3K4me3_SK-N-SH_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Oviduct	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
H3K27me3_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Adrenomedullin receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.28
H3K4me3_cardiac mesoderm_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FOXO1::ELF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	29.0427
dorsolateral prefrontal cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.91219
nucleus coeruleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.84759
locus ceruleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.19564
GTEX-Q2AI-1226-SM-48U14	GTEx Tissue Sample Gene Expression Profiles	1.0	0.953412
Shell gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.9
TCF3-18347094-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
Large intestine cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.002
KAP1-22055183-ESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
amygdaloid complex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.667
TNPO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.25744
Bladder	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
MYC_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TAF1	ENCODE Transcription Factor Targets	1.0	null
Superoxide dismutase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.085
SP in caudal subicular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0797
NR2C1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.05733
mRNA_GATA3_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
16293578-SuppTable2	GeneSigDB Published Gene Signatures	1.0	null
SPI1_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE195786_3_v_1_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
cerebellar cortex_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.09628
POU5F1_01_42	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.60119
integral component of membrane	GO Cellular Component Annotations 2015	1.0	null
Disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	2.014
IZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.28253
organic anion transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
PMC8473587__F1	PFOCR Pathway Figure Associations 2024	1.0	null
Nr2f6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	52.7908
Inflammation	CTD Gene-Disease Associations	1.0	1.18259
Digestive gland	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
teratocarcinoma cell	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE143499_0_v_1_gata6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE249893_1_v_0_tfam_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Epilepsy	DisGeNET Gene-Disease Associations	1.0	null
GSE99687_0_v_1_smad5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE202434,GSE202438_9_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
POLR2AphosphoS2_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE218060_1_v_4_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
umbilical cord	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.164675
Scutellum	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.726
EI24	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.40655
Perturb_1813_KO_N4bp1_SRP255180	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.56665
OVCAR-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.88704
CD33+_Myeloid	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-0.99753
GSE120370_0_v_3_thrombin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_5010_KO_Sall4_ERP122174	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
H3K4me3_CH12.LX_mm9_5	ENCODE Histone Modification Site Profiles	1.0	null
NRF1	ENCODE Transcription Factor Targets	1.0	null
morula	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.142257
Rectum adenocarcinoma_READ_TCGA-AF-2689-11A-01R-A32Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
paracentral lobule, anterior part, right, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.940724
GTEX-Q734-1626-SM-48U1B	GTEx Tissue Sample Gene Expression Profiles	1.0	1.18295
hsa-miR-646	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
GSE149903_3_v_7_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE151119_3_v_0_hsf1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE167546_1_v_2_atrx_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE246911,GSE246913_4_v_1_arid1a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE201042_2_v_7_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE126345_7_v_5_hcrt_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NR0B1-18358816-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
villus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.188336
hsa-miR-3144-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
THP-1	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.97271
SW-48 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.557
POLR2AphosphoS5_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE241701_1_v_0_daxx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE164874_5_v_0_prednisolone_human	RummaGEO Drug Perturbation Signatures	1.0	null
outer portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.58605
anterior (rostral) cingulate (medial prefrontal) cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.07476
NANOG-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
PMC6420765-12864_2019_5550_MOESM5_ESM.xlsx-D4_vs_D9-Unnamed_4_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
GSE239578_1_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Liver	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
H3K4me3_CH12.LX_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-RU1J-1026-SM-46MUR	GTEx Tissue Sample Gene Expression Profiles	1.0	1.29281
RAB40A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.48989
primary motor-sensory cortex (samples)_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.46679
Perturb_5050_KO_Pcgf6_SRP078684	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.36013
carboxylic acid transport	GO Biological Process Annotations 2015	1.0	null
YY1	JASPAR Predicted Transcription Factor Targets	1.0	null
NCIH1838	CCLE Cell Line Gene CNV Profiles	1.0	2.35426
GTEX-XUZC-0926-SM-4BOQF	GTEx Tissue Sample Gene Expression Profiles	1.0	2.45799
BMI1-19503595-MEFC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
cisplatin_mus musculus_gpl339_gse6206	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Perturb_15978_KO_Tsga8_SRP254760	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.38976
GTEX-NPJ8-0011-R8a-SM-2HMLG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.81057
H3K27me3_Stomach Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_Penis Foreskin Keratinocyte Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
EBC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.833867
PMC10282096-41467_2023_39038_MOESM4_ESM.xlsx-All_genes_Upregulated-ENSG00000177426_TGIF1	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-N7MS-0126-SM-3TW8O	GTEx Tissue Sample Gene Expression Profiles	1.0	0.966066
NR4A2::RXRA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.6004
membrane	GO Cellular Component Annotations 2015	1.0	null
KU1919	CCLE Cell Line Gene Expression Profiles	-1.0	-1.57161
GSE112761,GSE112767_4_v_5_ddx6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MIA-PaCa-2	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.70884
GSE145639_7_v_4_adar_human	RummaGEO Gene Perturbation Signatures	1.0	null
GATA1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.7242
Sarcoma_SARC_TCGA-DX-A3UC-01A-11R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-SNMC-1026-SM-4DM7K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0229
mucous gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.260945
ChIP_POU5F1_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
medial ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.65654
skin	HPA Tissue Gene Expression Profiles	-1.0	-0.968552
urinary bladder	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.089451
CardiacMyocytes	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-2.09131
Kidney renal clear cell carcinoma_KIRC_TCGA-B0-5098-01A-01R-1420-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_1219_KO_Klf16/Maz/Sp1/Zbtb7a_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE122067_2_v_1_mtch2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE127790_4_v_3_zcchc8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
retroparafascicular area of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.4211
TOV112D	CCLE Cell Line Gene Expression Profiles	1.0	1.64131
Epimastigote	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.658
lateral ganglionic eminence_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.967701
head	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.213291
Perturb_8632_KO_Sh3gl1/Sh3gl2/Sh3gl3_SRP082219	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.53477
GTEX-WHSE-0011-R1A-SM-3P5ZK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.895162
blastomere	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.13858
GSE189683_1_v_2_rif1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cell part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GTEX-NL3H-0011-R10A-SM-2I3E9	GTEx Tissue Sample Gene Expression Profiles	1.0	0.833032
GSE156115_0_v_3_igf2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
NCI-H1693	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.66466
SNAI3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.08944
496100640_PCx_no dementia_no TBI_95-99_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.83118
ES-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.57967
cas1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.535
corneal epithelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.407453
GSE101239_5_v_6_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_A549_hg19_4	ENCODE Histone Modification Site Profiles	1.0	null
ChIP_NANOG_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
POU5F1-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K4me3_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
L-amino acid transmembrane transporter activity	GO Molecular Function Annotations 2025	1.0	null
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
brain ventricle	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.119267
GSE217541,GSE217543_0_v_1_tet1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE150669_0_v_1_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE173201_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
UACC812	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-0.773972
mediodorsal nucleus of thalamus_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.828557
GTEX-QMR6-0011-R8A-SM-32PKJ	GTEx Tissue Sample Gene Expression Profiles	1.0	2.08721
GSE120612_6_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE114992,GSE114993_8_v_5_irf5_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-T2IS-2226-SM-4DM65	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21912
Kidney renal papillary cell carcinoma_KIRP_TCGA-AL-3466-01A-02R-1351-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Radicle	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.691
lateral hypothalamic area, anterior region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.05178
GTEX-UPK5-2126-SM-4JBJK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.951254
Perturb_13_KO_Pbx1/Pbx2_ERP125157	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
SLC-mediated transmembrane transport	Reactome Pathways 2014	1.0	null
Prostate cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
Lung squamous cell carcinoma_LUSC_TCGA-90-A4ED-01A-31R-A24Z-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_12597_KD_Gatad2b_SRP366371	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.71708
PMC10703699-41588_2023_1554_MOESM3_ESM.xlsx-T4B_BATF3_upreg_padj_0_01-Gene_Name_BATF3	Rummagene Transcription Factor Associations 2026	1.0	null
lysine transport	GO Biological Process Annotations 2015	1.0	null
intestinal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.119763
Rfx6	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	32.0815
Prostate adenocarcinoma_PRAD_TCGA-J9-A8CL-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Mesophyll cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.041
H3K4me3_Brain Anterior Caudate	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE162688_1_v_2_pink1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
primary auditory cortex (core)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.980463
resulted	GeneRIF Biological Term Annotations	1.0	null
GSE90552_1_v_0_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
lateral reticular nucleus (principal part)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.971716
Kidney renal clear cell carcinoma_KIRC_TCGA-DV-5573-01A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Gastrointestinal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.498
H3K4me1_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
cerebral gray matter	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.236921
PMC12549544-mmc2.xlsx-AA_D7_VS_D14-Name_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
VRTN	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05282
Prostate adenocarcinoma_PRAD_TCGA-EJ-7327-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MDAMB453	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.23039
amino acid transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
RAD21_H1-hESC_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RNF2	ENCODE Transcription Factor Targets	1.0	null
GSE186005_1_v_2_klf5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Germinal disc	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.08
GSE169152_5_v_4_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
EEF1AKMT4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57557
FOXC1	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K9ac_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
cell part	LOCATE Predicted Protein Localization Annotations	1.0	null
Perturb_8662_KO_TP53_SRP251281	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
COPA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.26136
SOX2-18358816-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
ARHGEF11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.08538
TE1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.41078
single-organism transport	GO Biological Process Annotations 2015	1.0	null
H3K27ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Caryopsis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.868
H3K27me3_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PLZ6-0826-SM-3P61K	GTEx Tissue Sample Gene Expression Profiles	1.0	1.44552
PMC9334849-Table_3.xlsx-subcutaneous_adipose_tissue-D1_VS_D9_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
L-lysine import across plasma membrane	GO Biological Process Annotations 2025	1.0	null
respiratory epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.076372
Perturb_6965_KO_MFng_SRP057171	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	12.6075
GSE210870_0_v_1_snai1_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC9810646-41598_2022_27273_MOESM1_ESM.docx-1-ZNF804B_ZNF804B	Rummagene Transcription Factor Associations 2026	1.0	null
WM115	CCLE Cell Line Gene Expression Profiles	-1.0	-1.7645
nitrogen compound transport	GO Biological Process Annotations 2023	1.0	null
H3K4me3_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
KD	DepMap CRISPR Gene Dependency	1.0	2.51429
GSE163862_2_v_3_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE143994_2_v_1_ythdf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.20633
SMAD3-22036565-ESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
VEZF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	62.7467
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.88704
GTEX-U412-2026-SM-4DXSI	GTEx Tissue Sample Gene Expression Profiles	1.0	0.888163
GSE182680,GSE182683_7_v_11_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TARDBP_KD_GDS3730_118_human_HEK293E	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
Radiation Damage	DisGeNET Gene-Disease Associations	1.0	null
sensory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.048992
L-ornithine transmembrane transporter activity	GO Molecular Function Annotations 2025	1.0	null
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.12312
GSE217694_3_v_2_pold1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE159049_3_v_0_sox2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
OVTOKO	DepMap CRISPR Gene Dependency	1.0	4.02798
GTEX-S4UY-0726-SM-4AD6X	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05448
GSE100102_2_v_6_cgas_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
nanog_16518401_mesc_lof_mouse_gpl1261_gds1824	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-2.53886
SOX2	ChEA Transcription Factor Targets	1.0	null
H3K4me3_Rectal Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE118794_0_v_4_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
TCF3-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
Vestibular nystagmus	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.07
VIIB, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.959131
reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
SMAD2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.6075
NANOG-18700969-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC9270251-mmc2.xlsx-4_Filtered_DEGs_Control_vs_KD_3-Gene_ID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
posterior cortical nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.9196
cat2	GeneRIF Biological Term Annotations	1.0	null
CAPAN2	CCLE Cell Line Gene Expression Profiles	-1.0	-1.51191
mRNA_NRIP1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GTEX-TKQ1-0526-SM-4DXTG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.4687
substrate-specific transporter activity	GO Molecular Function Annotations 2015	1.0	null
Perturb_5642_KD_SOX2_SRP174102	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
EIF3M	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24499
MES-SA	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.11073
MRPS2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.35811
GSE139016_3_v_1_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
superior occipital gyrus, right, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.42068
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	1.48595
Perturb_7080_KO_Hif1a_SRP300902	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.54938
PMC6607928-iovs-60-07-32_file_S11.xlsx-no_change_NRL_mutants-human_gene_ortholog_NRL	Rummagene Transcription Factor Associations 2026	1.0	null
C99	DepMap CRISPR Gene Dependency	1.0	6.21091
Sarcoma_SARC_TCGA-HS-A5N7-01A-21R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
PMC9207509-DataSheet_1.docx-3-SIX4_SIX4	Rummagene Transcription Factor Associations 2026	1.0	null
GSE234289_4_v_1_rfx6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
hippocampus (hippocampal formation)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.96279
H2BK12ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
molecular_function	GO Molecular Function Annotations 2015	1.0	null
GTEX-R55F-0011-R8A-SM-2TF4F	GTEx Tissue Sample Gene Expression Profiles	1.0	1.12424
GCNP_SHH_UP_EARLY.V1	MSigDB Signatures of Differentially Expressed Genes for Cancer Gene Perturbations	-1.0	null
dorsolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.18403
H3K4me3_H7_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC5105166-ncomms13331-s5.xlsx-Sheet1-Supplementary_Data_4_Gene_expression_signature_of_MEF2D-rearranged_cases_stranded_data_only_MEF2D	Rummagene Transcription Factor Associations 2026	1.0	null
similar	GeneRIF Biological Term Annotations	1.0	null
NANOG-18347094-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
CML-T1	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Adenoma_Adrenal gland_GSE8514	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.45204
H3K4me2_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE206870,GSE206872_3_v_5_ascl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE118794_0_v_1_zmynd8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebellar cortex_1 yrs_F_12830	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.39401
HEC265	CCLE Cell Line Gene CNV Profiles	1.0	2.00702
hsa-miR-1909	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
Transport of inorganic cations/anions and amino acids/oligopeptides	Reactome Pathways 2024	1.0	null
HINFP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30046
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.41115
Disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.916
Respiratory system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.435
Microsporangium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.503
Autistic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.126
ZNF76	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	37.4708
GSE149903_3_v_1_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06917
GSE186810,GSE186813_7_v_0_furin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAZ	ENCODE Transcription Factor Targets	1.0	null
Osteoclastoma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.748
PMC11214527-mmc5.xlsx-POU5F1-gene_POU5F1	Rummagene Transcription Factor Associations 2026	1.0	null
IZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.30351
CHD1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NRL_DN.V1	MSigDB Signatures of Differentially Expressed Genes for Cancer Gene Perturbations	-1.0	null
NCI-H2009	COSMIC Cell Line Gene CNV Profiles	-1.0	-3.7119
parietal neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.947947
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.833088
GSE158431_2_v_6_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
mRNA_TCF3_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Perturb_6330_KO_Lonp1_SRP304502	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.38628
EJM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32334
Depressive disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.209
GSE101239_5_v_1_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
BE2-M17	COSMIC Cell Line Gene Mutation Profiles	1.0	null
mesoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.113516
HCC1500	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.07551
GSE186810,GSE186813_7_v_0_furin_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
U4atac snRNP	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.058
GSE199660_1_v_3_secretin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-J9-A8CK-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_16956_Mut_Kif1b_SRP094648	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.65352
MG-63	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE214725_1_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
MDCK-MDR1 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.653
SOX2-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Reservosome	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.502
mRNA_KLF4_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
EZH2_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_9538_KD_Jmjd3_SRP066186	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
H3K27me3_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
respiratory system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-TM-A7C3-01A-11R-A32Q-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TMED10	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34814
Perturb_1221_KO_Klf16/Maz/Sp1/Zbtb7a_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-16.8993
snoutepidermis	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.34426
DUSP16	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.11494
VIIIB, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.08216
GTEX-WFON-1626-SM-4LVMV	GTEx Tissue Sample Gene Expression Profiles	1.0	0.85784
GSE81803,GSE81912_3_v_5_fmr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Intestinal disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.159
Mesophyll	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.097
Prostate adenocarcinoma_PRAD_TCGA-VN-A88K-01A-11R-A352-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-OHPK-2326-SM-3MJH2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21545
GTEX-N7MS-0011-R2a-SM-2HML6	GTEx Tissue Sample Gene Expression Profiles	1.0	0.87666
inferolateral temporal cortex (area TEv, area 20)_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.909567
NANOG-18358816-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
H3K27me3_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-XGQ4-1826-SM-4AT6F	GTEx Tissue Sample Gene Expression Profiles	1.0	1.27606
MDAMB361	DepMap CRISPR Gene Dependency	1.0	2.22272
cellular process	GO Biological Process Annotations 2015	1.0	null
GTEX-RUSQ-2126-SM-47JXK	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01124
Prostate adenocarcinoma_PRAD_TCGA-YL-A8SJ-01B-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
POU3F2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	22.0789
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
GTEX-T8EM-1826-SM-4DM7F	GTEx Tissue Sample Gene Expression Profiles	1.0	0.912198
Perturb_16934_KD_GLI1_SRP286421	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE149903_0_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SG in primary auditory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.16207
H3K9ac_MEL cell line_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
19658189-TableS4	GeneSigDB Published Gene Signatures	1.0	null
urinary tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056518
cellular_component	GO Cellular Component Annotations 2015	1.0	null
GSE112761,GSE112767_4_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Cornea plana	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.722
NANOG	ChEA Transcription Factor Targets	1.0	null
DMS114	CCLE Cell Line Gene Expression Profiles	1.0	2.04703
single-organism cellular process	GO Biological Process Annotations 2015	1.0	null
inferolateral temporal cortex (area TEv, area 20)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.05172
Spinal Muscular Atrophy, Infantile_CNS - Spinal Cord (MMHCC)_GSE3075	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	2.40767
Contractile ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.045
Lung squamous cell carcinoma_LUSC_TCGA-56-8083-01A-11R-2247-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE217541,GSE217543_3_v_2_tet1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
pro-B-lymphocyte cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.525
GSE182921_0_v_1_slit2_human	RummaGEO Gene Perturbation Signatures	1.0	null
hippocampus (hippocampal formation)_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.23412
bonemarrow	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	-1.0	-1.21969
IV, left, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.47188
APLP2_KO_GDS4414_534_mouse_adult cortex	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE169152_3_v_4_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-N7MS-0011-R3a-SM-33HC6	GTEx Tissue Sample Gene Expression Profiles	1.0	0.838013
H3K4me3_retinal pigment epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Renal medulla cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.647
TBP	ENCODE Transcription Factor Targets	1.0	null
cholecalciferol_mus musculus_gpl6246_gse41184	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
SETDB1	ChEA Transcription Factor Targets	1.0	null
Creb3l2	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.2715
SALL4-18804426_ESC-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE225083_0_v_1_kras_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K27me3_keratinocyte_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
uterus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.064571
NCI-H1355	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.03768
CMAH_KO_GDS4770_420_mouse_muscle	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
animal	TISSUES Experimental Tissue Protein Expression Evidence Scores	1.0	0.766457
organic acid transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
Genetic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.335
GSE205976,GSE205978_1_v_4_cep83_human	RummaGEO Gene Perturbation Signatures	1.0	null
Hypertension	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.009
H3K4me3_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CD34+	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.02297
PMC3226433-1756-8935-4-20-S1.XLS-Table_S4_Myc_KD_gene_exp_change-Genes_down-regulated_in_Myc_KD_hESC_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-RN64-1626-SM-48FD7	GTEx Tissue Sample Gene Expression Profiles	1.0	1.05869
Perturb_9515_KO_Sall4_ERP111723	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	10.0375
striatum_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.915179
SW48	COSMIC Cell Line Gene Mutation Profiles	1.0	null
CREB1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-RWSA-2426-SM-47JXR	GTEx Tissue Sample Gene Expression Profiles	1.0	0.865013
Perturb_17229_KO_Tsc1_SRP096336	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE216394_2_v_0_pfkp_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-P4PQ-1526-SM-3NMCK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.876963
Lung squamous cell carcinoma_LUSC_TCGA-56-6546-01A-11R-1820-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
tissues, cell types and enzyme sources	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
FOXK2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.5432
PMC12824661-BLOOD_BLD-2024-027020-mmc6.xls-Table_S14-ChIP_and_HES4_UP_HES4	Rummagene Transcription Factor Associations 2026	1.0	null
GSE180800,GSE180801_0_v_5_tex10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_1194_KO_Klf16/Maz/Sp1/Zbtb7a_SRP302435	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE101546_3_v_4_setdb1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
SK-MEL-31	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18098
GSE125219,GSE125221_5_v_0_arid1a_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_15862_KD_KDM3A_SRP270313	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
GSE138633_2_v_0_bag3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Epi	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.91
RCC-FG2	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.42767
GSE120612_4_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZNF384_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
angular gyrus, left, superior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.91667
Heart	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-1.35097
ChIP_NANOG_18692474	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
prostate_4c	HPA Tissue Sample Gene Expression Profiles	1.0	1.19614
Root cap	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.528
Transport of small molecules	Reactome Pathways 2024	1.0	null
GSE211983_1_v_2_nicotine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
SG in midlateral extrastriate cortex (area 19)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.825739
L-arginine import across plasma membrane	GO Biological Process Annotations 2023	1.0	null
GSE120370_4_v_3_thrombin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
goblet cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.340757
GSE216043_10_v_8_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
anterior hypothalamic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.40074
SNU-1040	COSMIC Cell Line Gene CNV Profiles	-1.0	-3.7119
GSE174498,GSE174500_0_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-T6MO-0326-SM-32QOK	GTEx Tissue Sample Gene Expression Profiles	1.0	1.13658
arginine transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
Stoma	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.04
cerebellar cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.87543
GSE110178_5_v_0_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me1_CH12.LX_mm9_4	ENCODE Histone Modification Site Profiles	1.0	null
SLC7A3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.15065
FAM3C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.16729
Type 1 diabetes mellitus_pancreatic islet_GSE2254	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.77637
H2BK5ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K27me3_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
dorsolateral prefrontal cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.88441
POLR2AphosphoS2_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DTD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08739
deltaEF1	MotifMap Predicted Transcription Factor Targets	1.0	null
thyroid gland disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.22454
L-ornithine transmembrane transport	GO Biological Process Annotations 2025	1.0	null
GTEX-Q734-0726-SM-48TZP	GTEx Tissue Sample Gene Expression Profiles	1.0	1.1371
HCC70	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	1.26939
T24	DepMap CRISPR Gene Dependency	1.0	2.03846
GSE60217_1_v_0_inosine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE189653,GSE203344_2_v_0_fluoxetine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE158431_2_v_0_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
IMCD cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.658
GSE140997_4_v_3_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
PEBP1_KO_GSE31150_52_mouse_pancreas	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE179880_7_v_5_e2f4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Endocrine system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.126
HCFC1_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
OVCA 429	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00933
Immune system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.234
membrane	LOCATE Predicted Protein Localization Annotations	1.0	null
PMC6347712-pnas.1812449116.sd06.xlsx-iPSC_IRF7_48h_rest_RNAExpress-Gene_IRF7	Rummagene Transcription Factor Associations 2026	1.0	null
LU99	CCLE Cell Line Gene CNV Profiles	1.0	1.93509
lateral ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.27977
Perturb_13170_KD_Ncor1_SRP060657	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	3.37017
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
suz12_17339329_mouse_embryonic_stem_cell_es_cell_lof_mouse_gpl1261_gse31354	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.036371
Perturb_4992_KO_Mettl5_SRP268611	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.73981
RERFLCSQ1	CCLE Cell Line Gene CNV Profiles	1.0	1.62264
H3K4me3_fibroblast of lung_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A3UF-01A-11R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
sense organ	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060847
GSE176008_7_v_2_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Hypodermis	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.823
GSE151494_1_v_9_nrp1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Gastrointestinal system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.266
GSE211983_1_v_3_nicotine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
lateral parabrachial nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.35106
H3K4me3_A549_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H716	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.78142
Spondylolysis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.292
PMC10746608-427_2023_709_MOESM4_ESM.xlsx-SOX2_targets_enrichment-Unnamed_43_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-EK-A2R9-01A-11R-A18M-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
zfx_17448993_embryonic_stem_cell_lof_mouse_gpl1261_gds2718	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	-1.0	-0.80382
H3K4me3_iPS DF 19.11	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
MAX_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-W5WG-1326-SM-4LMI9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.16718
Perturb_4141_KO_Apoe_SRP131850	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	4.79441
primary motor-sensory cortex (samples)_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.09382
GTEX-RTLS-2426-SM-46MUO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.976667
GTEX-PWCY-1426-SM-48TCT	GTEx Tissue Sample Gene Expression Profiles	1.0	2.24043
GSE235682_3_v_0_rbl2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.48022
lat1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.84
lateral hypothalamic area, anterior part	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.961296
WDR3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.20414
NELFE	ENCODE Transcription Factor Targets	1.0	null
Collecting duct cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.741
GSE198165,GSE198166_5_v_3_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
temporal neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.936203
19605494-TableS1	GeneSigDB Published Gene Signatures	1.0	null
carboxylic acid transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
H3K4me3_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
496100397_PCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.04669
HNF1A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14272
GSE220693_1_v_0_cgas_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
orbital frontal cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.86983
GSE229468,GSE229471_2_v_1_znf587_human	RummaGEO Gene Perturbation Signatures	1.0	null
MZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.42706
GSE202310_1_v_0_ube3d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CEBPG	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.9053
COA3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01841
GSE126345_0_v_3_hcrt_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ZFAND1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12462
Polyphosphate kinase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.505
Perturb_5031_KO_4930500J02Rik_SRP072189	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.53034
Cone	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.604
shell gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	1.23272
Prostate adenocarcinoma_PRAD_TCGA-EJ-7792-01A-11R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SOX2-18692474-MEFS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
testis	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE158431_5_v_4_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
FOXP3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.3504
AQP11_Deficiency_GDS3395_578_mouse_Kidney	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GTEX-XPVG-1526-SM-4B66C	GTEx Tissue Sample Gene Expression Profiles	1.0	2.1255
trophectoderm	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.941355
BNC1_KD_GDS1978_738_mouse_Oocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE176008_0_v_2_azacitidine_human	RummaGEO Drug Perturbation Signatures	1.0	null
Acquired metabolic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.017
GSE147366_1_v_4_med13_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE202434,GSE202438_10_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC11336098-41598_2024_70235_MOESM1_ESM.pdf-427-CEBPG_CEBPG	Rummagene Transcription Factor Associations 2026	1.0	null
hippocampus (hippocampal formation)_16 pcw_M_12879	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.851417
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.925242
MET_knockout_250_GDS3148	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.57482
GSE155305_3_v_0_ifitm3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE125862_2_v_0_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CBX2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NANOG-18692474-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
inner CP in subgenual (subcallosal) cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0063
CEBPB_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE101239_4_v_1_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Musculoskeletal system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.076
USF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.9566
amygdaloid complex_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.01762
KDM5A	ENCODE Transcription Factor Targets	1.0	null
GSE186810,GSE186813_7_v_5_furin_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE217694_4_v_0_pold1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MXI1_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
amino acid transport	GO Biological Process Annotations 2015	1.0	null
NOA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.2372
GSE89018_10_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.872081
transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
caudal ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.79718
acetyl-CoA carboxylase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.542
CMLT1	CCLE Cell Line Gene Expression Profiles	1.0	2.65492
CDK2AP2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.15236
H3K27me3_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ovary cancer cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.221291
Perturb_11127_KO_Epor_SRP061270	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.0369
GSE182680,GSE182683_5_v_2_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_foreskin fibroblast_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_Fetal Brain	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
SETDB1-19884257-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
icSARA deltaORF6_24Hour_23365422_GSE33267	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.45506
GTEX-S95S-1126-SM-4B64E	GTEx Tissue Sample Gene Expression Profiles	1.0	0.89649
Actomyosin contractile ring	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.103
system	GeneRIF Biological Term Annotations	1.0	null
POU5F1-16518401-CHIP-PET-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
preoptic region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.4095
ChIP_SOX2_19030024	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
NCIH1092	DepMap CRISPR Gene Dependency	1.0	2.18339
Vagina	GTEx Tissue Gene Expression Profiles 2023	1.0	1.42152
Kidney renal papillary cell carcinoma_KIRP_TCGA-IA-A83W-01A-11R-A355-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Yersinia enterocolitica food poisoning_Peyer's patch_GSE4764	GEO Signatures of Differentially Expressed Genes for Diseases	1.0	1.65569
GTEX-RNOR-0326-SM-2TF51	GTEx Tissue Sample Gene Expression Profiles	1.0	1.01881
MGE-Lateral region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.61999
H3K79me2_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
medial habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.52627
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE216043_3_v_6_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
A-CA-04-2009(H1N1)_Day1_22532695_GSE36328	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	3.46718
GTEX-S4P3-1326-SM-4AD6V	GTEx Tissue Sample Gene Expression Profiles	1.0	1.17804
P2RY11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.63895
Lung squamous cell carcinoma_LUSC_TCGA-18-3409-01A-01R-0980-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
SIN3A_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_fibroblast of lung_hg19_5	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-RTLS-2626-SM-46MUJ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.30451
PMC9160255-41467_2022_30710_MOESM4_ESM.xlsx-AR_specific_regulated_genes-SYMBOL_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
POR_KO_GDS1678_760_mouse_Colon	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.68
PMC9578714-elife-81083-supp2.xlsx-AA_Transporters-Ensembl_ID_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
locus ceruleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.39661
HCC38	CCLE Cell Line Gene CNV Profiles	1.0	3.27229
PHETA2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.64089
Seminal vesicle	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GTEX-WHSE-0011-R8A-SM-3P5Z1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.07682
GTEX-OIZH-2126-SM-3NB1P	GTEx Tissue Sample Gene Expression Profiles	1.0	0.876853
H3K4me3_fibroblast of mammary gland_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43539
cerebellar cortex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.31457
GSE202434,GSE202438_10_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE135439_0_v_1_pax5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.219
GSE205163,GSE205164_9_v_4_znf808_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Central nervous system cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.151
JEKO1	CCLE Cell Line Gene Expression Profiles	1.0	1.37313
H3K27me3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-Netherlands-602-2009(H1N1)_3Hour_None_GSE40844	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.4067
epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.412771
PMC7880998-41467_2021_21255_MOESM8_ESM.xlsx-Sup_Data_5_TWIST_Panel-Gene_Name_TWIST1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE122101,GSE122103_3_v_4_ssu72_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
lateral group of nuclei, right, ventral division	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.943046
PHF8	ENCODE Transcription Factor Targets	1.0	null
Hematopoietic system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.169
H3K4me2_H1 BMP4 Derived Trophoblast Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE214248_0_v_1_cxcl8_human	RummaGEO Gene Perturbation Signatures	1.0	null
RAB24	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15989
ChIP_POU5F1_16518401	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
l-amino acid transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
GSE96777,GSE96778_3_v_2_zbtb4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
496100305_PCx_no dementia_no TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.17392
carboxylic acid transport	GO Biological Process Annotations 2023	1.0	null
supraoptic nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.972992
H3K27me3_CD14-positive monocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CHD1	ENCODE Transcription Factor Targets	1.0	null
GSE216538_5_v_6_mrs2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K9me3_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ABL1_knockdown_144_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.93309
MXI1_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
L-alpha-amino acid transmembrane transport	GO Biological Process Annotations 2023	1.0	null
PMC12824661-BLOOD_BLD-2024-027020-mmc6.xls-Table_S14-HES4_Up_HES4	Rummagene Transcription Factor Associations 2026	1.0	null
central nervous system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.066727
OAW-42	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.45555
ARNT_01_240	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	1.04221
SARS-CoV MA15_Day4-TNFRsf1b KO_None_GSE40824	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.92901
membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GSE125219,GSE125221_5_v_2_arid1a_human	RummaGEO Gene Perturbation Signatures	1.0	null
Type IV secretion system complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.858
SRY	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.9643
plasma membrane	GO Cellular Component Annotations 2015	1.0	null
Mesothelioma_MESO_TCGA-MQ-A6BS-01A-12R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EZH2_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF574	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.948
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SALL4-18804426-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
PMC12358249-supplementary_table_s6_ioaf064.xlsx-DMRT1_-_vs_WT__1dpp-Unnamed_1_DMRT1	Rummagene Transcription Factor Associations 2026	1.0	null
dorsal thalamus_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.12631
embryo	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069377
Perturb_13763_KO_Uqcrq_SRP284268	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE138228,GSE138230_2_v_1_cdkn1c_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE138863_2_v_1_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KE39	CCLE Cell Line Gene CNV Profiles	-1.0	-2.34961
ion transmembrane transport	GO Biological Process Annotations 2015	1.0	null
NALM19	CCLE Cell Line Gene Expression Profiles	1.0	2.40872
STAT3	JASPAR Predicted Transcription Factor Targets	1.0	null
MHHCALL2	CCLE Cell Line Gene Expression Profiles	1.0	1.50737
H3K79me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Glucose metabolism disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.192
GTEX-X585-0011-R3B-SM-46MVG	GTEx Tissue Sample Gene Expression Profiles	1.0	0.901135
D423MG	DepMap CRISPR Gene Dependency	1.0	15.7529
GTEX-N7MS-0011-R10A-SM-2HMJK	GTEx Tissue Sample Gene Expression Profiles	1.0	0.853874
EZH2_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Sarcoma_SARC_TCGA-DX-A48R-01A-11R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE140937,GSE140938_0_v_2_slfn11_human	RummaGEO Gene Perturbation Signatures	1.0	null
SPI1	ChEA Transcription Factor Targets	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-VS-A8EJ-01A-11R-A37O-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
EBF1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	44.9089
FOXF2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.8098
occipital neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.47012
GTEX-X585-0011-R1B-SM-46MVE	GTEx Tissue Sample Gene Expression Profiles	1.0	0.847069
conjunctiva	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.380251
H3K4me3_astrocyte of the spinal cord_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
male reproductive system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
ecv-304 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.61699
Perturb_15224_KD_lncRNALFAR1_SRP101771	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
FOXD2	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	40.5741
CDCA3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39502
GTEX-POMQ-1426-SM-3P61D	GTEx Tissue Sample Gene Expression Profiles	1.0	0.998887
MAPK14_knockdown_139_GSE31912	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-2.07502
H3K4me3_Penis Foreskin Fibroblast Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Ring gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.656
HARA	CCLE Cell Line Gene CNV Profiles	1.0	1.38256
GSE126345_7_v_10_hcrt_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
female reproductive gland	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.06086
H3K4me1_Neurosphere Cultured Cells Cortex Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
BMI1-19503595-MEFSC-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
NCI-H2444	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.12432
GSE181959_3_v_2_dextran_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-U3ZN-0726-SM-4DXT5	GTEx Tissue Sample Gene Expression Profiles	1.0	1.15785
Testicular cancer cell	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GTEX-RWS6-1326-SM-47JXB	GTEx Tissue Sample Gene Expression Profiles	1.0	2.10922
H3K4me3_Colonic Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE60837_0_v_4_bcl9_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-X585-0011-R8A-SM-46MUX	GTEx Tissue Sample Gene Expression Profiles	1.0	1.79791
integral component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
whole body	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE110268_1_v_3_foxd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Teratocarcinoma cell	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
GTEX-UJHI-1426-SM-3DB9C	GTEx Tissue Sample Gene Expression Profiles	1.0	0.910054
GTEX-S3XE-1226-SM-4AD4L	GTEx Tissue Sample Gene Expression Profiles	1.0	0.829005
GSE98755,GSE98756_1_v_0_fbxl19_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
LNZTA3WT4	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Trichome	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.896
PMC10204296-13578_2023_1034_MOESM16_ESM.xlsx-Black-ZNF671_ZNF671	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-S4P3-0726-SM-4AD57	GTEx Tissue Sample Gene Expression Profiles	1.0	0.928329
A375	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.15336
GSE139239_1_v_5_ddr1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_13248_OE_Med24_SRP201000	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.8189
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.941234
H3K4me3_retinal pigment epithelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_Fetal Brain	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
NANOG-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
orbital frontal cortex_2 yrs_F_12979	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.98874
Urinary system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.207
H3K4me3_fibroblast of pulmonary artery_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GTEX-X585-0011-R5A-SM-46MVI	GTEx Tissue Sample Gene Expression Profiles	1.0	0.840705
GSE140997_4_v_6_nsun6_human	RummaGEO Gene Perturbation Signatures	1.0	null
MKN1	CCLE Cell Line Gene Expression Profiles	-1.0	-2.16272
IZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.11325
GTEX-TML8-0926-SM-4DXSJ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.891647
Perturb_13434_KD_Zc3h13_SRP098937	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.43221
EN	COSMIC Cell Line Gene Mutation Profiles	1.0	null
Disease of cellular proliferation	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.605
Perturb_14526_KO_Foxa2/Gata4_SRP111204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
H3K4me2_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE196699_4_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE182680,GSE182683_0_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
periventricular nucleus, preoptic portion	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.30212
monogenic disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.060145
GSE149903_6_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
occipital neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.3104
JHOS4	CCLE Cell Line Gene CNV Profiles	1.0	2.09602
ChIP_SOX2_18358816	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
G-402	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.1023
Male reproductive system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
GSE95386_0_v_1_trim24_human	RummaGEO Gene Perturbation Signatures	1.0	null
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
anterior (rostral) cingulate (medial prefrontal) cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.58781
nr2c2_20864514_liver_1yo_lof_mouse_gpl4134_gse21903	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.139678
GTEX-RU72-2626-SM-4GIE1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21189
GTEX-P4QT-2026-SM-3NMCJ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.45925
H3K4me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE188870,GSE188871_0_v_2_kat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-O5YW-1526-SM-3MJGL	GTEx Tissue Sample Gene Expression Profiles	1.0	1.42476
GSE94849_1_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Ovary	BioGPS Human Cell Type and Tissue Gene Expression Profiles	1.0	1.28104
H3K4me2_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE200673,GSE200691_1_v_5_hmga2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE123943_4_v_0_sox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE124410_3_v_0_stk40_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ventromedial hypothalamic nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.10288
GTEX-NPJ7-0011-R8a-SM-2I3G2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.38306
WHAMM	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02007
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Pancreatic adenocarcinoma_PAAD_TCGA-F2-7273-01A-11R-2156-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Medulloblastoma cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.515
Basis pedunculi cerebri	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.543
supraoptic nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.991856
GSE94849_3_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Breast cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.111
clathrin-coated vesicle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.891
cerebellar cortex_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.6709
CGTHW1	CCLE Cell Line Gene CNV Profiles	1.0	2.21544
organic cation transport	GO Biological Process Annotations 2025	1.0	null
H3K56ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
KLF9	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	182.512
urinary bladder cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.09708
GSE181821_1_v_4_mov10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_WERI-Rb-1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE198165,GSE198166_8_v_4_zfp266_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Refractive error	GWAS Catalog SNP-Phenotype Associations 2025	1.0	1.55229
cisplatin_homo sapiens_gpl6480_gse33482	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
Bursa copulatrix	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.539
PMC4387713-supp_gad.255984.114_Table_S3.xlsx-S3A-Down_Dpy30_KD-Unnamed_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
occipital neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.34446
NCIH1930	CCLE Cell Line Gene CNV Profiles	-1.0	-2.59447
P30OHK	DepMap CRISPR Gene Dependency	1.0	9.12218
PBX1-22567123-OVCAR3-HUMAN	ChEA Transcription Factor Targets 2022	1.0	null
GSE137914_0_v_1_tet3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
AF-12-IW93_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.434004
HCC1171	CCLE Cell Line Gene Expression Profiles	-1.0	-2.13772
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
Pontine nucleus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.815
Lung adenocarcinoma_LUAD_TCGA-95-7948-01A-11R-2187-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
RUNX1_01_314	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	0.93448
Disease of cellular proliferation	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
GSE172458_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RPS6KB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.19617
NCIH661	CCLE Cell Line Gene Expression Profiles	1.0	1.56023
H3K4me3_H1 Derived Neuronal Progenitor Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
ChIP_NANOG_18700969	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
cat3	GeneRIF Biological Term Annotations	1.0	null
HCC1419	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	-1.0	-1.24465
Prostate adenocarcinoma_PRAD_TCGA-H9-A6BX-01A-31R-A311-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-KK-A6E3-01A-21R-A30B-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.23372
outer CP in subgenual (subcallosal) cingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.27385
CHD1_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE116810_2_v_0_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TIA1_KO_GSE54418_260_mouse_cerebellum	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
monolayer-surrounded lipid storage body	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.778
H3K4me3_CD8 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Calcitonin family receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.008
DGKQ	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.45411
GSE81193_3_v_2_irf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MOLT13	CCLE Cell Line Gene Expression Profiles	1.0	1.46669
membrane part	GO Cellular Component Annotations 2015	1.0	null
17616640-TableS1	GeneSigDB Published Gene Signatures	1.0	null
PMC11392820-41556_2024_1475_MOESM3_ESM.xlsx-Supplementary_Table_9-Supplementary_Table_9_Expression_level_of_OTX2_targeted_genes_n_999_related_to_Figure_6_OTX2	Rummagene Transcription Factor Associations 2026	1.0	null
fallopiantube_8b	HPA Tissue Sample Gene Expression Profiles	1.0	0.928091
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.43595
GSE121824,GSE121826_0_v_3_scaf8_human	RummaGEO Gene Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.998429
amygdaloid complex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.898951
H3K4me3_B cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
PHF8_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
periaqueductal gray substance, dorsolateral portion	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.17649
primary somatosensory cortex (area S1, areas 3,1,2)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.15534
GSE128076_2_v_3_doxycycline_human	RummaGEO Drug Perturbation Signatures	-1.0	null
amygdaloid complex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.26595
Prostate disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
Endometrial luminal epithelium	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.81
Perturb_12596_KD_Chd4_SRP366371	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.08138
GSE149903_3_v_2_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE89018_11_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
choroid plexus of the fourth ventricle	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.04579
mRNA_ZSCAN4C_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE208254_4_v_5_irf8_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
striatum_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.73358
GSE110178_5_v_6_tranylcypromine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_8551_KD_Tet3_SRP056501	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE217694_3_v_0_pold1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Checkpoint clamp complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.81
H3K4me3_astrocyte of the cerebellum_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POU5F1-18347094-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
ion transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
Perturb_8665_KO_TP53_SRP251281	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.58873
GSE122101,GSE122103_0_v_4_ssu72_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_7570_KD_LATS1_SRP335747	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-11.5797
GSE116810_5_v_3_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Developmental disorder of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.362
CBX8_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-PX3G-2526-SM-48TZV	GTEx Tissue Sample Gene Expression Profiles	1.0	0.913366
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.56759
PANC0403	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33561
posterior group of nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.60115
Prostate adenocarcinoma_PRAD_TCGA-HC-7081-01A-11R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Necrosis	CTD Gene-Disease Associations	1.0	1.12082
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
lipid	GeneRIF Biological Term Annotations	1.0	null
BCL11A	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	16.1173
ESET_KO_GDS4508_348_mouse_Dorsal telencephalon from E14.5 embryos	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
H3K4me1_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_cardiac mesoderm_hg19_3	ENCODE Histone Modification Site Profiles	1.0	null
BC-1	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.99338
Perturb_11964_KO_BATF_SRP401628	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	7.53293
AP-1 adaptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.844
Glycolate oxidase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.192
Pheochromocytoma and Paraganglioma_PCPG_TCGA-QR-A70E-01A-11R-A35K-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_15706_KD_Ctcf_SRP173291	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
Bundle sheath	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.843
I-II	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.95546
inferolateral temporal cortex (area TEv, area 20)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.843273
GSE200839,GSE233826_3_v_6_tnrc18_human	RummaGEO Gene Perturbation Signatures	1.0	null
Leaf lamina	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.325
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.55726
intrinsic component of membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
GTEX-N7MT-0726-SM-3TW8S	GTEx Tissue Sample Gene Expression Profiles	1.0	0.842503
FAAP100	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.18908
mediodorsal nucleus of thalamus_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.00577
rostral subdivision of medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.91776
ESRRG_Deficiency_GDS2811_638_mouse_Fetal heart - Homozygous null mutant	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GTEX-WRHU-0326-SM-3MJFY	GTEx Tissue Sample Gene Expression Profiles	1.0	1.03535
CERS5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06811
HSPA9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.71296
ZNF33B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.82798
TALL1	CCLE Cell Line Gene Expression Profiles	1.0	1.86448
Disease of mental health	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.488
NCIH650	CCLE Cell Line Gene CNV Profiles	1.0	1.48663
Perturb_2138_KO_ASCC3_SRP282634	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
carboxylic acid transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
Perturb_5824_KO_Pax5_SRP095167	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE240386,GSE242143_8_v_3_morc2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE169152_5_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
SOX2-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
MAX_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE164874_5_v_9_prednisolone_human	RummaGEO Drug Perturbation Signatures	1.0	null
C6 glioma cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.748
primary motor cortex (area M1, area 4)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.49363
H3K27me3_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ChIP_POU5F1_18700969	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE218060_5_v_0_decitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
POU5F1-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
L-alpha-amino acid transmembrane transport	GO Biological Process Annotations 2025	1.0	null
dorsolateral prefrontal cortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	2.00925
distribution	GeneRIF Biological Term Annotations	1.0	null
urinary bladder cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.09708
Perturb_8911_KO_YAP1_SRP132362	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
HCC1395	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47122
Head and Neck squamous cell carcinoma_HNSC_TCGA-D6-6827-01A-11R-1915-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
icSARA deltaORF6_3Hour_23365422_GSE33267	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.83818
GSE165122_2_v_1_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_15715_KD_Ctcf_SRP173291	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-10.4928
gastrointestinal tract	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053245
OCIMY7	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46324
Liver disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.015
membrane part	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.098109
dorsal raphe nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.93304
KE37	CCLE Cell Line Gene Expression Profiles	1.0	1.94908
H2AFZ_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Prostate cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.006
GSE94849_6_v_2_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GTEX-RWS6-1726-SM-47JXP	GTEx Tissue Sample Gene Expression Profiles	1.0	0.952889
GTEX-PLZ6-1126-SM-3P5ZR	GTEx Tissue Sample Gene Expression Profiles	1.0	0.98948
NCIH1993	DepMap CRISPR Gene Dependency	1.0	7.39953
primary visual cortex (striate cortex, area V1/17)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.911188
VZ in subgenual cingulate neocortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.13551
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-FU-A3EO-11A-13R-A213-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
organic acid transport	GO Biological Process Annotations 2015	1.0	null
Bacterial infectious disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.062
lung	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.053908
ZNF143_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Kidney Chromophobe_KICH_TCGA-KN-8435-11A-01R-2315-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
endocrine gland	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE169152_3_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
medial ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.48466
caudal ganglionic eminence_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.41955
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12684
toxin-antitoxin complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.299
subcallosal cingulate gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.899172
inferolateral temporal cortex (area TEv, area 20)_4 mos_M_12889	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.02029
MYC	ENCODE Transcription Factor Targets	1.0	null
GATA3_01_347	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	1.96721
Hic1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	16.8378
cerebellar cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.31315
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
SJRH30	CCLE Cell Line Gene Expression Profiles	1.0	1.59274
Photosystem II	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.923
Esophagus	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
H3K4me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
glucose	GeneRIF Biological Term Annotations	1.0	null
Amnioserosa	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.606
YY1	MotifMap Predicted Transcription Factor Targets	1.0	null
TCF3-18692474-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Perturb_17145_OE_Xbp1_ERP110244	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.95319
GSE142232,GSE142234_0_v_3_gcgr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE165579_0_v_1_opa1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
primary motor cortex (area M1, area 4)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.22603
RPMI7951	CCLE Cell Line Gene CNV Profiles	1.0	1.37582
SOX2-19030024-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
CAL33	CCLE Cell Line Gene Expression Profiles	-1.0	-1.78526
GTEX-S32W-1126-SM-4AD5V	GTEx Tissue Sample Gene Expression Profiles	1.0	0.975808
disease of anatomical entity	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.041021
RB_DN.V1	MSigDB Signatures of Differentially Expressed Genes for Cancer Gene Perturbations	-1.0	null
GSE116492,GSE116495_3_v_2_stag2_human	RummaGEO Gene Perturbation Signatures	1.0	null
outer CP in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.871398
NR0B1-18358816-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
Zfp809	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	32.5772
l-alpha-amino acid transmembrane transport	GO Biological Process Annotations 2015	1.0	null
ID2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.59096
Whole body	TISSUES Curated Tissue Protein Expression Evidence Scores 2025	1.0	4.0
WDR13	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.77845
PMC9160255-41467_2022_30710_MOESM4_ESM.xlsx-AR_specific_regulated_genes-SYMBOL_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE89018_12_v_14_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H2342	COSMIC Cell Line Gene Mutation Profiles	1.0	null
alimentary canal	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.052112
GSE162739_4_v_1_bap1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-QVJO-0011-R9A-SM-2S1QH	GTEx Tissue Sample Gene Expression Profiles	1.0	1.0171
H3K4me3_CH12.LX_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
cations	GeneRIF Biological Term Annotations	1.0	null
oviduct	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.3356
GSE224969,GSE224971_3_v_7_chtop_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE184210_0_v_2_glucagon_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
prostate	HPA Tissue Gene Expression Profiles	1.0	0.963537
ACADSB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15865
estradiol_mus musculus_gpl4134_gse23241	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
POLR2AphosphoS5_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Cationic amino acid transporter 3	InterPro Predicted Protein Domain Annotations	1.0	null
NCIH1963	CCLE Cell Line Gene CNV Profiles	-1.0	-1.41157
UMUC1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55062
reduction	GeneRIF Biological Term Annotations	1.0	null
ACSS2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.34481
GSE169152_3_v_2_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_MEL cell line_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_15079_KD_Ash1l_SRP354984	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.37891
cerebellar cortex_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.31216
ChIP_NANOG_18347094	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE169152_3_v_6_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.976096
GTEX-PX3G-2426-SM-48TZZ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.918082
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.24251
Sarcoma_SARC_TCGA-DX-A6BA-01A-11R-A30C-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MET_knockout_248_GDS3148	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	3.38201
GSE196699_2_v_3_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-OOBJ-2126-SM-3NB1N	GTEx Tissue Sample Gene Expression Profiles	1.0	0.844139
H3K4me3_NT2-D1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
L-arginine import across plasma membrane	GO Biological Process Annotations 2025	1.0	null
GTEX-R53T-1226-SM-48FCT	GTEx Tissue Sample Gene Expression Profiles	1.0	0.835123
eye	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.069266
PMC9508118-42003_2022_3857_MOESM6_ESM.xlsx-h-Classification_of_camel_SON_basal_genes_-_transporters_SON	Rummagene Transcription Factor Associations 2026	1.0	null
Sarcoma_SARC_TCGA-WK-A8XZ-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
amygdaloid complex_12 pcw_F_13060	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.10759
GSE155031_6_v_1_dextran_human	RummaGEO Drug Perturbation Signatures	1.0	null
placenta	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.259591
H2AFZ_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
polymorphic layer of caudal subiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.965287
143B	CCLE Cell Line Gene CNV Profiles	1.0	1.63673
keratoconus	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.949102
GSE202434,GSE202438_9_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
paraterminal gyrus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.978761
MPP89	CCLE Cell Line Gene CNV Profiles	-1.0	-1.57818
cuneiform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.30484
GSE210580_0_v_11_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
starvation	GeneRIF Biological Term Annotations	1.0	null
ZNF420	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27873
Prostate adenocarcinoma_PRAD_TCGA-G9-7523-01A-11R-2263-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Intestinal cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.0
H3K4me1_CH12.LX_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
A-498	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24427
GLRX	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0816
Urease complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.775
seminal vesicle	HPA Tissue Protein Expression Profiles	1.0	1.18842
H4K91ac_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
PMC6995218-12864_2020_6525_MOESM3_ESM.xlsx-D2FAST48h_vs_D3REFED24h_1198_AR-Symbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
central gray substance of midbrain, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.825103
GSE205976,GSE205978_2_v_5_cep83_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PBX1-22567123-OVCAR3-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-5847-01A-11R-1708-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
arginine transport	GO Biological Process Annotations 2015	1.0	null
GSE216043_3_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Organ system cancer	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
x-linked disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.563335
SNUC5	DepMap CRISPR Gene Dependency	1.0	2.98716
mRNA_SOX9_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
PMC10810548-pone.0289518.s002.xlsx-SOM_w_identifiers-target_gene_GRHL3	Rummagene Transcription Factor Associations 2026	1.0	null
Vegetative stage	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.573
H3K27me3_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
smoothmuscle_8b	HPA Tissue Sample Gene Expression Profiles	1.0	0.957891
GTEX-NPJ8-0011-R10A-SM-2YUMO	GTEx Tissue Sample Gene Expression Profiles	1.0	0.827152
GSE163862_1_v_3_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
PMC3022822-1471-2164-12-11-S6.XLS-ES_enriched_list-Additional_File_6_Human_embryonic_stem_cells_genes_that_are_SOX2_targets_in_GBM_cells_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
stratum lacunosum-moleculare of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0241
MNAT1_Deficiency - Ablation_GDS2561_690_mouse_Heart - 4 week old	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
SNUC1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78701
hippocampus (hippocampal formation)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.912756
HCC827	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.878448
iPS-20b Cells	Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles	-1.0	-0.874216
GSE165308_1_v_0_gfi1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ASAP complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.509
fallopian tube	HPA Tissue Protein Expression Profiles	1.0	1.18842
MC-IXC	COSMIC Cell Line Gene Mutation Profiles	1.0	null
GSE229468,GSE229471_0_v_3_znf587_human	RummaGEO Gene Perturbation Signatures	-1.0	null
FOXI1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	17.0319
POU5F1-18358816-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GTEX-S7SF-0826-SM-4AD4W	GTEx Tissue Sample Gene Expression Profiles	1.0	1.41788
GSE84462,GSE84762_0_v_7_ezh2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Mesothelioma_MESO_TCGA-MQ-A4LP-01A-11R-A34F-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HHV8_72Hour-BEC_20080955_GSE16354	GEO Signatures of Differentially Expressed Genes for Viral Infections	-1.0	-2.32954
H3K4me3_brain microvascular endothelial cell_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
gallbladder	HPA Tissue Protein Expression Profiles	1.0	1.18842
Sarcoma_SARC_TCGA-IF-A4AJ-01A-11R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE154081_3_v_0_sildenafil_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
Brain Lower Grade Glioma_LGG_TCGA-DU-8165-01A-11R-2256-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
ZSCAN4	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	166.932
primary visual cortex (striate cortex, area V1/17)_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.13569
GSE182680,GSE182683_5_v_8_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27me3_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endometrium_8a	HPA Tissue Sample Gene Expression Profiles	1.0	1.12529
EP300_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_5_v_11_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SRY-25088423-EMBRYONIC-GONADS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
C33A	DepMap CRISPR Gene Dependency	1.0	3.35319
SW1271	DepMap CRISPR Gene Dependency	1.0	2.19465
UBE2L6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06144
Conceptus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.109
GTEX-XLM4-1526-SM-4AT6D	GTEx Tissue Sample Gene Expression Profiles	1.0	0.848999
Cell type cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.414
Prostate adenocarcinoma_PRAD_TCGA-YL-A8HJ-01A-11R-A36G-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
HCC2279	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.35033
Lassa Fever Virus_4hr_24069471_GSE41300	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	0.967176
mediodorsal nucleus of thalamus_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.20132
GSE113734_3_v_0_qprt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-ER-A2NC-06A-11R-A18T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
III, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.921943
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.55829
GSE196699_7_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
496100446_TCx_no dementia_no TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.00793
GSE151119_2_v_0_hsf1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_Neurosphere Cultured Cells Ganglionic Eminence Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
upper limb region of M1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.78348
Porcine aortic endothelial cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.585
Nanog_KD_GDS1824_134_mouse_embryonic stem cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
NR2F6	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	26.2531
PMC7452054-mmc1.docx-21-ELF1_ELF1	Rummagene Transcription Factor Associations 2026	1.0	null
parietal neocortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.14906
cerebellar cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.527
NCI-H2172	COSMIC Cell Line Gene Mutation Profiles	1.0	null
SCABER	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65591
IZ in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.65069
icSARA deltaORF6_30Hour_23365422_GSE33267	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	2.03209
medial habenular nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.13201
GSE94849_6_v_4_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
parolfactory gyri, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.30777
primary somatosensory cortex (area S1, areas 3,1,2)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.886375
VIIB, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.912911
preoptic region, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.23802
KARPAS-1106P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.19301
GSE94814_1_v_0_reck_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
animal	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE188869,GSE188871_2_v_3_kat7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTEX-S7SE-0326-SM-4AT5Q	GTEx Tissue Sample Gene Expression Profiles	1.0	0.938439
GSE140997_10_v_1_nsun6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Transnitrosylase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.545
TELO2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.55197
parietal neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	0.987602
GTEX-PX3G-2026-SM-48U1H	GTEx Tissue Sample Gene Expression Profiles	1.0	1.61973
NCIH1568	CCLE Cell Line Gene CNV Profiles	-1.0	-2.09257
SP4	ENCODE Transcription Factor Targets	1.0	null
hsa-miR-3913-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
KKU100	DepMap CRISPR Gene Dependency	1.0	4.22235
nitric-oxide synthase complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.525
GSE240258_0_v_1_prmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
POU5F1-18700969-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE150669_2_v_3_roxadustat_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
plasma membrane	COMPARTMENTS Curated Protein Localization Evidence Scores	1.0	0.663342
GTEX-XUW1-0326-SM-4BOOR	GTEx Tissue Sample Gene Expression Profiles	1.0	0.825251
GSE208254_3_v_2_irf8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
E2F1-18555785-MESC-mouse	ChEA Transcription Factor Binding Site Profiles	1.0	null
Perturb_5324_OE_Hif1a_SRP386119	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.67268
NARF	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.40051
CBX8	ENCODE Transcription Factor Targets	1.0	null
Perturb_16935_KD_SOX2_SRP286421	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
U-373MG cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.537
disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.040497
Kidney renal clear cell carcinoma_KIRC_TCGA-CZ-5455-11A-01R-1503-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
biological_process	GO Biological Process Annotations 2015	1.0	null
amygdaloid complex_16 pcw_M_12837	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.10232
H3K4me3_SK-N-SH_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
tardbp_19910924_hek293e_lof_human_gpl570_gds3730	GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations	1.0	0.366424
connecting stalk	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.161748
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.925242
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.06917
testicular cancer cell	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
GSE112760,GSE112767_4_v_5_ddx6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Thylakoid membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.789
PMC12216174-41598_2025_6356_MOESM13_ESM.xlsx-Sheet1-Supplementary_Table_3_Classification_of_amino_acid_AA_transporters_at_four_different_subcellular_localizations_TEAD1	Rummagene Transcription Factor Associations 2026	1.0	null
mediodorsal nucleus of thalamus_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.06262
IGR39	CCLE Cell Line Gene Expression Profiles	-1.0	-1.60054
ChIP_SOX2_18692474	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GTEX-OHPK-2026-SM-3MJH7	GTEx Tissue Sample Gene Expression Profiles	1.0	2.9522
PMC11258892-NIHMS2003533-supplement-MMC6.pdf-34-ZNF211_ZNF211	Rummagene Transcription Factor Associations 2026	1.0	null
GSE198165,GSE198166_7_v_4_zfp266_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
mRNA_NANOG_16518401	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
PTEN_KD_GDS4759_337_mouse_E16 primary cortical neuron cultures	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
nerve	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.056617
GTEX-S4Q7-1026-SM-4AD75	GTEx Tissue Sample Gene Expression Profiles	1.0	0.887986
intestine	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.054946
NCIH2009	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70875
Frond	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.878
cerebellar cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.3045
Biceps femoris	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.596
PMC6420765-12864_2019_5550_MOESM5_ESM.xlsx-D9_vs_D15-Unnamed_4_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
GTEX-PWCY-1326-SM-48TCU	GTEx Tissue Sample Gene Expression Profiles	1.0	0.913167
Kidney renal clear cell carcinoma_KIRC_TCGA-CJ-5681-11A-01R-1541-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Hairy cell leukemia cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.788
CCK81	DepMap CRISPR Gene Dependency	1.0	3.75628
endometrium_4b	HPA Tissue Sample Gene Expression Profiles	1.0	1.40081
Sarcoma_SARC_TCGA-IF-A4AK-01A-21R-A24X-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Chorioallantois	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.697
SEM	CCLE Cell Line Gene Expression Profiles	1.0	1.68641
membrane	GeneRIF Biological Term Annotations	1.0	null
POU2F3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	20.0663
Kidney renal papillary cell carcinoma_KIRP_TCGA-BQ-5888-11A-01R-1592-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Lung squamous cell carcinoma_LUSC_TCGA-33-4533-01A-01R-1201-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
cerebellar cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.940477
CBX7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30768
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.02458
H3K4me3_MEL cell line_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
G protein-coupled receptor complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.911
conceptus	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.884167
GSE211262,GSE211263_2_v_1_pbrm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_SK-N-MC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
amino acid import across plasma membrane	GO Biological Process Annotations 2025	1.0	null
hippocampus (hippocampal formation)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.131
Prostate adenocarcinoma_PRAD_TCGA-G9-6361-01A-21R-1965-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
TMX4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.10359
ASPC1	DepMap CRISPR Gene Dependency	1.0	3.99866
RS411	CCLE Cell Line Gene Expression Profiles	1.0	1.42384
urogenital system	TISSUES Curated Tissue Protein Expression Evidence Scores	1.0	null
Lung	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
GSE100863,GSE100864_3_v_0_tet2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18098
GTEX-P78B-2226-SM-3P5ZZ	GTEx Tissue Sample Gene Expression Profiles	1.0	0.91279
lateral orbital frontal cortex (area 12/47)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.851965
BHLHE40_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mRNA_ESX1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE216043_10_v_4_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_kidney epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ventromedial hypothalamic nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.10909
ZNF230	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.29935
ZIC3-20872845-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE182680,GSE182683_7_v_6_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
Male reproductive system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.028
Alimentary canal	TISSUES Experimental Tissue Protein Expression Evidence Scores 2025	1.0	1.091
posterior group of nuclei, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.65268
t-24 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.224274
GSE151612_0_v_8_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_GM06990_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE151612_4_v_8_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE201042_6_v_3_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-X585-0011-R10A-SM-46MUY	GTEx Tissue Sample Gene Expression Profiles	1.0	0.902461
transverse gyri, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.32816
GSE84148,GSE96938_0_v_2_nrros_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Prostate disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.004
ChIP_POU5F1_18347094	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
pineal gland	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.75028
MOSPD3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.69184
GSE110440_2_v_0_rad21_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H1048	COSMIC Cell Line Gene Mutation Profiles	1.0	null
knockdown	GeneRIF Biological Term Annotations	1.0	null
Skin Cutaneous Melanoma_SKCM_TCGA-GN-A4U9-06A-11R-A32P-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE235682_1_v_0_rbl2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Brain - Putamen (basal ganglia)	GTEx Tissue Gene Expression Profiles 2023	1.0	0.397774
Tripartite ATP-independent periplasmic transporter complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.613
STAT6	MotifMap Predicted Transcription Factor Targets	1.0	null
RFX1	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	19.2091
GSE180185_9_v_8_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
caudal subdivision of medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.37072
SQ1	CCLE Cell Line Gene CNV Profiles	1.0	1.42783
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
X, left, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.970348
GTEX-TSE9-2826-SM-4DXTF	GTEx Tissue Sample Gene Expression Profiles	1.0	1.10615
PMC8616957-41467_2021_27270_MOESM4_ESM.xlsx-Sheet1-Supplementary_Data_1_Differentially_expressed_genes_FDR_0_05_edgeR_exact_test_in_MLL-AF4_infant-ALL_vs_MLL-AF4_childhood-ALL_KMT2A	Rummagene Transcription Factor Associations 2026	1.0	null
RNF2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Rkip1_KO_GDS4331_15_mouse_C57BL/C pancreas	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
Lateral vestibular nucleus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	1.121
GSE174498,GSE174500_3_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
amino acid transport	GO Biological Process Annotations 2025	1.0	null
U11 snRNP	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.548
primary auditory cortex (core)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.16745
Hoxa13	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	18.0922
GTEX-PWN1-2026-SM-48TD9	GTEx Tissue Sample Gene Expression Profiles	1.0	1.09134
GSE120248,GSE120252_1_v_0_macf1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cochlear nuclei, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.2243
Nkx2-1	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	22.3636
GSE151494_10_v_3_nrp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
EZH2_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC_endothelial cell of umbilical vein_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Antler	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.969
GSE211262,GSE211263_3_v_1_pbrm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
YH-13	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.12344
GSE149903_0_v_1_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
smooth muscle	HPA Tissue Gene Expression Profiles	1.0	0.95521
TE159T	CCLE Cell Line Gene Expression Profiles	-1.0	-3.2041
TC205	DepMap CRISPR Gene Dependency	1.0	3.37445
facial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.19414
reproductive system	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.070263
Secretory trichome	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.816
COLO 201	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.956663
D-566MG	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.17241
NANOG-18347094-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
HuH-6 cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.75
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
ChIP_TCF3_18692474	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
l-lysine transmembrane transporter activity	GO Molecular Function Annotations 2015	1.0	null
dorsolateral prefrontal cortex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.32499
MYB	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	15.7557
VIIIB, left, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.884219
GSE89018_1_v_8_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BACH1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE113329,GSE113335_3_v_4_taf6l_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GTF2F1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mediodorsal nucleus of thalamus_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.06453
PBX1	ChEA Transcription Factor Targets	1.0	null
GTEX-P78B-2526-SM-3P5ZY	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06019
Lymphoma_burkitts(Raji)	BioGPS Human Cell Type and Tissue Gene Expression Profiles	-1.0	-2.04361
GSE149035_7_v_0_hepacam_human	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-R3RS-0626-SM-48FE1	GTEx Tissue Sample Gene Expression Profiles	1.0	1.06026
H3K27ac_H1	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
hsa-miR-483-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
MZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.880493
Mo-B cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.818
Perturb_17738_KO_Phf8_SRP093797	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.37105
modified amino acid transport	GO Biological Process Annotations 2023	1.0	null
GTEX-S7PM-0626-SM-4AD4Q	GTEx Tissue Sample Gene Expression Profiles	1.0	0.910527
GTEX-XYKS-1626-SM-4BRUQ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.88009
GSE169152_3_v_7_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
USF2	ENCODE Transcription Factor Targets	1.0	null
wc1	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.882
transporter	GeneRIF Biological Term Annotations	1.0	null
GTEX-Q2AG-0011-R8A-SM-2HMK5	GTEx Tissue Sample Gene Expression Profiles	1.0	0.956836
MAST3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.37231
allan-herndon-dudley syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	1.57601
TFE3	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	21.0458
SKBR3	Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles	1.0	0.691794
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE137177_1_v_0_folic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
POLR2AphosphoS5_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Nervous system disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.692
basic amino acid transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
Perturb_15007_KO_Hdac2_SRP097585	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.29899
H3K4me3_Mobilized CD34 Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE137818_3_v_7_brca2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE172189_0_v_1_venetoclax_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CHD2_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5	ENCODE Transcription Factor Targets	1.0	null
Perturb_15352_KO_DND1_SRP319950	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.37996
GSE196671_5_v_8_obox4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Primary immunodeficiency disease	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.052
GTEX-T5JC-0011-R8A-SM-32PLM	GTEx Tissue Sample Gene Expression Profiles	1.0	0.870428
SW 780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.894439
LMSU	CCLE Cell Line Gene CNV Profiles	1.0	1.79894
H3K4me3_H1 Derived Mesenchymal Stem Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
KAP1-27257070-CHIP-SEQ-ESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
Bach1::Mafk	JASPAR Predicted Mouse Transcription Factor Targets 2025	1.0	31.2456
EIF2S3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.35991
H3K4me3_Brain Substantia Nigra	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GTEX-VJYA-1426-SM-4KL1Y	GTEx Tissue Sample Gene Expression Profiles	1.0	0.8682
TMEM234	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07106
GTEX-TSE9-2526-SM-4DXUS	GTEx Tissue Sample Gene Expression Profiles	1.0	0.901973
RCM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.44601
H3K4me2_Muscle Satellite Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
GSE167373_0_v_3_rbfox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE120612_6_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
dorsal cochlear nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.879441
Transmembrane transport of small molecules	Reactome Pathways 2014	1.0	null
Ischemic colitis	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.065
GSE189653,GSE203344_5_v_3_fluoxetine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE149903_6_v_1_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Carbohydrate metabolic disorder	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.193
GSE101239_4_v_6_valproic acid_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Starch grain	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.737
GSE201042_2_v_3_ptpmt1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-WZTO-0011-R3B-SM-3NMC6	GTEx Tissue Sample Gene Expression Profiles	1.0	0.857095
L-lysine transmembrane transporter activity	GO Molecular Function Annotations 2023	1.0	null
G protein-coupled receptor dimeric complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.016
ChIP_SETDB1_19884257	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
928 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.833088
GSE200388_0_v_1_gemin5_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC5105166-ncomms13331-s11.xlsx-Sheet1-Supplementary_Data_10_Overlap_of_upregulated_genes_in_MEF2D-rearranged_cases_with_public_ChIPseq_RNAseq_data_MEF2D	Rummagene Transcription Factor Associations 2026	1.0	null
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.9734
LN319	DepMap CRISPR Gene Dependency	1.0	2.05663
H3K4me3_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_mononuclear cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTEX-WFJO-1126-SM-4LVLZ	GTEx Tissue Sample Gene Expression Profiles	1.0	1.89922
GSE140322_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE142210_11_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
SRY	ChEA Transcription Factor Targets	1.0	null
H3K4me3_Colon Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
496100384_HIP_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.25001
L-Arginine	DrugBank Drug Targets	1.0	null
GTEX-T6MN-2026-SM-4DM7L	GTEx Tissue Sample Gene Expression Profiles	1.0	0.861211
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18098
GTEX-OXRL-2126-SM-3NM98	GTEx Tissue Sample Gene Expression Profiles	1.0	0.926076
Sarcoma_SARC_TCGA-WK-A8XS-01A-11R-A37L-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE239578_0_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
amino acid transmembrane transport	GO Biological Process Annotations 2015	1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09836
Plantlet	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.768
GSE89018_1_v_2_cry2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
IST-SL2	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.55863
embryonic stem feeder layer	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	1.0	2.09859
primary motor cortex (area M1, area 4)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-0.906845
TNS2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.13596
GSE216043_10_v_9_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
SPI1-20176806-THIOMACROPHAGE-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-EJ-7315-01A-31R-2118-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
Perturb_15225_KD_lncRNALFAR1_SRP101771	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE149903_4_v_1_myd88_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
valproic acid_mus musculus_gpl6246_gse23956	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
Lassa Fever Virus_24hr_24069471_GSE41300	GEO Signatures of Differentially Expressed Genes for Viral Infections	1.0	1.75023
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE108675_3_v_0_slc1a4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GTEX-QEG4-0126-SM-48TZE	GTEx Tissue Sample Gene Expression Profiles	1.0	1.02221
GSE216043_3_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Sarcoma_SARC_TCGA-PC-A5DO-01A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
MYBL2-22936984-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
GSE239373_0_v_1_mettl3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Nrf2_deficiency_GDS3406_156_mouse_liver	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
pyrazinamide_mus musculus_gpl6246_gse48027	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
GTEX-T6MN-0011-R8A-SM-32QP3	GTEx Tissue Sample Gene Expression Profiles	1.0	1.21729
JHH-7	COSMIC Cell Line Gene Mutation Profiles	1.0	null
FANCD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24192
PMC6335596-mmc2.xlsx-RNA-seq_Day_3_GATA6_Het-Unnamed_13_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
amygdaloid complex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.07082
H3K27me3_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mRNA_SETDB1_19884255	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
NR0B1	ChEA Transcription Factor Targets	1.0	null
GTEX-XGQ4-1626-SM-4AT6J	GTEx Tissue Sample Gene Expression Profiles	1.0	1.49797
GSE182680,GSE182683_0_v_6_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
SSBP4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.50061
H3K4me2_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCIH716	CCLE Cell Line Gene CNV Profiles	-1.0	-1.92985
GTEX-XOTO-0011-R8A-SM-4B65J	GTEx Tissue Sample Gene Expression Profiles	1.0	1.15711
Perturb_303_KD_Cd109_SRP078564	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.70212
RCH-ACV	COSMIC Cell Line Gene Mutation Profiles	1.0	null
SJSA-1	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.03017
ovary cell line	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.059156
GTEX-U3ZN-1926-SM-4DXSG	GTEx Tissue Sample Gene Expression Profiles	1.0	1.07752
NB7	DepMap CRISPR Gene Dependency	1.0	2.94329
GTEX-U3ZH-1426-SM-4DXSR	GTEx Tissue Sample Gene Expression Profiles	1.0	1.00247
GSE205070_1_v_4_mertk_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cerebral lobe	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.095307
GSE174498,GSE174500_5_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
eye disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.052436
trans-Golgi network transport vesicle membrane	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	0.843
GTEX-T2IS-1526-SM-32QPR	GTEx Tissue Sample Gene Expression Profiles	1.0	1.08948
Amastigote	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.69
chrX_70927809_A_G_b38	GTEx eQTL 2025	1.0	1.12959
GSE131649_2_v_9_hemin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF143	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	27.8344
cerebellar cortex_13 yrs_F_12831	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	-1.0	-1.45887
Perturb_9516_Mut_Sall4_ERP111723	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.6769
Perturb_16431_KD_E2f4_SRP327850	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.91885
Reproductive system disease	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	1.0	1.896
primary motor-sensory cortex (samples)_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.52033
Pituitary	GTEx Tissue Gene Expression Profiles 2023	1.0	3.53538
Photosystem II antenna complex	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	1.0	1.057
H3K27me3_Breast vHMEC	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
ovary cancer cell	TISSUES Text-mining Tissue Protein Expression Evidence Scores	1.0	0.060834
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
GSE198165,GSE198166_5_v_11_zfp266_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8481886-Table_1.xlsx-A_subsets-iMSC_fetal_MSC_UC_MSC_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
SP1	ENCODE Transcription Factor Targets	1.0	null
inferolateral temporal cortex (area TEv, area 20)_18 yrs_M_12984	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.828509
MYC-19030024-MESCS-MOUSE	ChEA Transcription Factor Targets 2022	1.0	null
hsa-miR-136	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
nucleus accumbens, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.11557
GTEX-Q2AG-0011-R3A-SM-2HMJ9	GTEx Tissue Sample Gene Expression Profiles	1.0	0.887271
Allan-Herndon-Dudley syndrome	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.157
ZNF384_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.9734
GSE182680,GSE182683_7_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
RUNX2-22187159-PCA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
Prostate adenocarcinoma_PRAD_TCGA-HC-8264-01B-11R-2403-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GSE158431_5_v_1_pioglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
RNH1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.29703
ZNF449	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	39.2289
SNU1544	DepMap CRISPR Gene Dependency	1.0	2.12505
GSE174498,GSE174500_2_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC4387713-supp_gad.255984.114_Table_S4.xlsx-S4A-Down_Nanog_KD-Unnamed_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
CEBPA	JASPAR Predicted Human Transcription Factor Targets 2025	1.0	25.8785
Perturb_15258_KO_Sall2_SRP171624	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE120612_7_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Cervical squamous cell carcinoma and endocervical adenocarcinoma_CESC_TCGA-MY-A5BF-11A-11R-A26T-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
GTEX-TSE9-2626-SM-4DXV2	GTEx Tissue Sample Gene Expression Profiles	1.0	1.12064
Brain Lower Grade Glioma_LGG_TCGA-FG-A87Q-01A-11R-A36H-07	TCGA Signatures of Differentially Expressed Genes for Tumors	1.0	null
CBX2	ENCODE Transcription Factor Targets	1.0	null
BNC1_KD_GDS1978_70_mouse_oocytes	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	null
GSE182680,GSE182683_5_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EP300_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Venom apparatus	TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025	1.0	0.535
GSE147240_0_v_7_dasatinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
occipital neocortex_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	1.0	1.49279
eye and adnexa disease	DISEASES Text-mining Gene-Disease Association Evidence Scores	1.0	0.050779
GSE196699_7_v_3_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me2_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K4me3_skeletal muscle cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE70935_3_v_5_cyfip1_human	RummaGEO Gene Perturbation Signatures	1.0	null
DETROIT 562	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.908119
GTEX-WEY5-0726-SM-4LMID	GTEx Tissue Sample Gene Expression Profiles	1.0	1.39134
Neurotoxicity Syndromes	CTD Gene-Disease Associations	1.0	1.14575
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_5241_KO_Trp53_SRP255362	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	20.0
GSE208254_3_v_1_irf8_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE216043_11_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
bronchus	HPA Tissue Protein Expression Profiles	1.0	1.18842
cuneiform nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.01971
central nucleus of inferior colliculus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.986384
PMC10787250-BLOODA_ADV-2022-008899-mmc1.xlsx-Table_S7-Table_S7_Differentially_expressed_genes_commonly_up-_or_downregulated_in_CBFA2T3_GLIS2_leukemia_GLIS2	Rummagene Transcription Factor Associations 2026	1.0	null