association	dataset	threshold value	standardized value
NE-94-VE83_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.384902
GSE169205_0_v_8_sirt5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10742386-pnas.2311372120.sd05.xlsx-GCM1_EVT-Gene_Symbol_GCM1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-SRF_SRF	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_8_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE178714_3_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE210870_0_v_2_snai1_human	RummaGEO Gene Perturbation Signatures	1.0	null
skeletalmuscle_e	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.85091
GSE158834_7_v_4_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE183994_1_v_0_scml2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
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	1.29143
pineal body	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.00278
AC-71-YF45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.293362
LU99	CCLE Cell Line Gene CNV Profiles	1.0	1.53333
Perturb_17767_KO_Prdm16_SRP238935	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.10095
MDA-MB-468	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.960614
SUM 1315M02	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.844869
UF-14-LK87_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.560256
MF-81-RJ18_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.242585
GSE188721_3_v_4_mesp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE136622_2_v_3_srpk3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE200352_10_v_6_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_16832_OE_Myc_SRP250081	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.49664
GSE182680,GSE182683_5_v_4_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MOG-G-CCM	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.23985
Perturb_18482_KD_DNMT1_SRP261597	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.24686
GSE114284_4_v_5_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_4456_KD_Mecp2_SRP125116	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.50133
GSE171177,GSE171181_1_v_2_e7107_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE178714_3_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_11319_KO_Hlf/Dbp/Tef_SRP218451	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.46641
GSE205070_2_v_7_mertk_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE171177,GSE171181_1_v_0_e7107_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me1_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27me3_erythroblast_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Perturb_10970_KO_Cd109_ERP017365	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.56248
smoothmuscle_8c	HPA Tissue Sample Gene Expression Profiles	1.0	0.860422
GSE77108_8_v_1_saha_human	RummaGEO Drug Perturbation Signatures	-1.0	null
AA-46-GL76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.60585
D283MED	CCLE Cell Line Gene CNV Profiles	1.0	1.64831
DA-40-HO94_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.274012
PMC10123531-NIHMS1874945-supplement-Table_S6.xlsx-SOX2_BCAT_cobound_peaks-Gene_Name_SOX2	Rummagene Transcription Factor Associations 2026	1.0	null
outer CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.943233
OE-84-HO42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.424341
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SNUC1	DepMap CRISPR Gene Dependency	1.0	10.8449
cerebellar cortex_17 pcw_F_12880	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.866607
regulation of translational initiation	GO Biological Process Annotations 2023	1.0	null
GSE139948_3_v_1_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_6178_KO_Bmal1_ERP113681	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.55097
GSE160817_5_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE116810_2_v_0_selinexor_human	RummaGEO Drug Perturbation Signatures	-1.0	null
outer portion of lateral ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.0411
GSE81803,GSE81912_2_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10099894-NAN-49-0-s001.xlsx-GENIC_INTERSECT_VCF-MID_TBX1	Rummagene Transcription Factor Associations 2026	1.0	null
stratum radiatum of rostral CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.30717
inner SZ in dorsolateral prefrontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.943461
PMC11925450-elife-96850-supp2.xlsx-DNMT1_KO_vs_DNMT1_L1TD1_dKO_res-Unnamed_0_DNMT1	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_8390_KO_Ssu72_SRP167695	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.29702
SURF4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30847
PLCB3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.96564
BE-38-UW72_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.363939
H3K9ac_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE145476_2_v_3_hopx_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
QGP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.854195
GSE216043_3_v_2_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CB-16-SY72_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.256072
medial portion of STH	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.01899
CAKI2	DepMap CRISPR Gene Dependency	1.0	5.03859
AD-16-HL96_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.237374
GSE189683_3_v_0_rif1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
VZ in caudal hippocampal proper	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.7046
SA-32-CC58_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.314122
negative regulation of translational initiation	GO Biological Process Annotations 2023	1.0	null
GSE174701_5_v_8_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_2548_KO_MLL3_SRP163132	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.36361
SIK2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.05688
Perturb_13748_KO_Pum1/Pum2_SRP100512	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.6812
AC-00-BR21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.229884
SNU216	CCLE Cell Line Gene CNV Profiles	1.0	1.55171
preoptic region, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.899472
AB-71-CI37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.333865
DB-41-IH69_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.479538
JD-81-YX02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.488467
AE-06-FY47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.319909
GSE217405_0_v_1_osimertinib_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE139455_2_v_5_stat3_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE97352_1_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-3920	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
amygdaloid complex_24 pcw_M_12288	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.960069
IPO13	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.41605
GSE114284_1_v_0_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
UF-14-LK87_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204522
GSE142210_2_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
NCI-H520	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.944903
TA-20-FO62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216674
PLD6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.14345
HEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.870377
H3K4me3_kidney_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
orbital frontal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.69499
GSE230573_1_v_0_dcaf1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
dorsal thalamus_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.947499
MCC26	DepMap CRISPR Gene Dependency	1.0	2.97066
GSE154767_4_v_3_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE95077_5_v_2_amiloride_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
YD-49-HM53_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.291332
H3K9me3_G1E_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
TD-69-UA90_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.203876
dorsolateral prefrontal cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.2741
GSE146982_0_v_6_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
XB-75-YN01_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.37382
EA-18-FP00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.325877
Perturb_2356_KD_IRX6_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.56281
GSE123825_2_v_3_glutamine_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE132369,GSE132371_3_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K27me3_megakaryocyte_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
no-11	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-1.98054
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.894608
NCIH2081	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32797
GSE151364,GSE151366_1_v_2_taf4_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HCC1569	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.15762
Edinger-Westphal nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.19653
EMC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.68869
7516_RPS27A_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.914693
mRNA_NR2F2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
H3K4me3_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC8020666-pnas.2015855118.sd09.xlsx-LPS_24_chimp_DRSG_higherRes-Ensemble_gene_id_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
ZSWIM7	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.15355
PMC12522211-NIHMS2104691-supplement-MMC1.xlsx-SRCAP_DE_genes-Gene_SRCAP	Rummagene Transcription Factor Associations 2026	1.0	null
GSE158834_12_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
precentral gyrus, right, inferior lateral aspect of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.944507
medial habenular nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.61037
GSE142210_2_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_10992_KO_Il6ra_ERP017365	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.92137
WB-82-EL69_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.260353
KG1	CCLE Cell Line Gene CNV Profiles	1.0	1.59713
POLR2A_limb_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATP5IF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.37706
NCI-H2795	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.847819
GSE169152_3_v_2_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE178714_5_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.93801
JHH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.16286
GSE202434,GSE202438_3_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_15107_KD_EWSR1_SRP169096	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.63931
NCIH1781	CCLE Cell Line Gene CNV Profiles	-1.0	-2.28756
LTO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.98812
COR-L88	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884902
upper (rostral) rhombic lip	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.65519
DD-65-SA37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.61308
H3K4me3_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE145323,GSE145324_1_v_4_rfx3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205070_2_v_5_mertk_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
POLDIP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.01363
HC-01-FD24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204602
GSE207914_5_v_6_nudt7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SKIC2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00429
GSE139016_0_v_1_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
AD-16-HL96_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.219567
H3K4me1_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
BC-75-FA82_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.206031
anterior (rostral) cingulate (medial prefrontal) cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.13794
GSE195559_8_v_4_notch1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
FE-29-XM40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.376699
496100474_FWM_possible Alzheimer's disease_TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.16249
MZ in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.992583
anterior (rostral) cingulate (medial prefrontal) cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.835037
primary motor cortex (area M1, area 4)_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.00059
KLE	DepMap CRISPR Gene Dependency	1.0	6.04435
Perturb_14382_KD_PAX8_SRP276625	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.01163
BC-72-DZ30_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211394
HCC1419	CCLE Cell Line Gene CNV Profiles	1.0	2.02001
GSE151829,GSE151831_7_v_8_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
HT1197	DepMap CRISPR Gene Dependency	1.0	4.80745
SCLC-21H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.62889
GSE207611,GSE207612_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE112761,GSE112767_4_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
5910_NXF1_P1	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.551316
amygdalohippocampal transition zone, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.08696
GSE196259_2_v_3_gcm1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GID8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.33897
GSE109285_3_v_2_glucagon_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE158834_7_v_13_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
AA-86-YY62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211269
NUGC-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.4013
GSE98898_7_v_1_hoxa1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
mRNA_ELF1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Perturb_11312_KO_Bmal1_SRP153814	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.30646
GSE205163,GSE205164_3_v_7_znf808_human	RummaGEO Gene Perturbation Signatures	-1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.981138
Perturb_14353_KD_TUT4_SRP120600	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.6232
GSE160304,GSE163392_4_v_3_zswim8_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE246184,GSE246195_0_v_1_sin3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8709578-elife-69843-supp2.xlsx-MIX_E2_1h-Nearest_Ensembl_MIXL1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC11285331-cd-23-0539_table_s1_suppst1.xlsx-Lost_AR_Peaks-Unnamed_19_AR	Rummagene Transcription Factor Associations 2026	1.0	null
ACTL6A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.18404
GSE114284_1_v_3_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
SNU-668	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.871561
496100278_FWM_no dementia_TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.16504
DF-00-BU08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.931911
IC-28-HS37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.688761
PMC10794847-mmc5.xlsx-PIAS1_KD_down-Table_S4_Differentially_expressed_genes_with_PIAS1_knockdown_in_the_progenitors_state_Related_to_Figure_5_AR	Rummagene Transcription Factor Associations 2026	1.0	null
multiform (lateral) division of MD	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.26063
GSE139911_0_v_4_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me1_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DB-29-HQ45_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204919
MKN-74	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53423
ELAVL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.30658
H3K4me3_ES-E14_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MEF2C_MEF2C	Rummagene Transcription Factor Associations 2026	1.0	null
GSE178292_0_v_2_melphalan_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE228106_0_v_1_paclitaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
lateral habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.901605
GSE182680,GSE182683_0_v_3_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE135030_11_v_2_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE112860_0_v_7_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
hsa-miR-185	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
GSE174701_1_v_6_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
layer II of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.06172
XC-81-LR46_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.364661
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.24488
H3K4me3_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
smooth muscle	HPA Tissue Gene Expression Profiles	1.0	1.23274
HC-11-RK51_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.599811
Perturb_14493_KO_Cnot4_SRP285155	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.72478
GE-34-TW62_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.244779
cerebellum_13 pcw_M_12888	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.39354
PK-45H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.833112
GSE182680,GSE182683_10_v_11_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE123943_4_v_0_sox1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
transverse gyri, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.09845
GSE113952,GSE113953_1_v_0_chtop_human	RummaGEO Gene Perturbation Signatures	-1.0	null
EC-62-OE64_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.491232
GSE172020_0_v_2_testosterone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
HCC461	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.876604
LCN12	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.43867
FB-56-IR20_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.263038
PMC10199266-mmc2.xlsx-RUNX1-DEGs-Unnamed_1_RUNX1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_2_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE242083,GSE242098_3_v_1_med1_human	RummaGEO Gene Perturbation Signatures	1.0	null
496100608_FWM_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.17191
NC-28-YK77_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.210787
Perturb_2431_KD_IRX6_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.9468
GSE174701_1_v_2_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K9ac_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE220600_1_v_2_clpp_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE160817_5_v_9_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
hsa-miR-3613-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
GSE216538_1_v_3_mrs2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE195514_0_v_1_stk25_human	RummaGEO Gene Perturbation Signatures	1.0	null
AE-56-RB57_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.302156
MT-ND5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.21801
GSE179002_0_v_8_caprin1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PATZ1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.50029
GSE210580_0_v_7_rag2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE149075_6_v_9_foxa2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC9338531-13046_2022_2445_MOESM18_ESM.xlsx-AASE_Cal62_KD-geneSymbol_AR	Rummagene Transcription Factor Associations 2026	1.0	null
hsa-miR-320d	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
GSE140322_3_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ZNF638	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27985
GSE206516,GSE206518_0_v_7_ptdss2_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-199b-5p	TargetScan Predicted Conserved microRNA Targets	1.0	1.26663
HIGD1A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.41127
H3K4me1_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POMP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.43479
GSE151090_2_v_1_verteporfin_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC10742386-pnas.2311372120.sd05.xlsx-DLX3_EVT-Gene_Symbol_DLX3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE175787_11_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
MB-49-LL22_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.547913
PMC11925450-elife-96850-supp2.xlsx-DNMT1_KO_vs_DNMT1_L1TD1_dKO_res-geneName_DNMT1	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_14923_Mut_Atxn3_SRP155020	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-7.59411
hsa-miR-586	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
hsa-miR-320b	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
H3K4me3_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
duodenum	HPA Tissue Protein Expression Profiles	1.0	1.53671
GSE135030_3_v_0_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
FB-66-UU47_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.238775
GSE112174_5_v_7_runx1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_erythroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE128730_7_v_6_neratinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_4886_KD_WTAP_ERP019668	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.32931
JIMT-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.944903
ACACA	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.61791
Perturb_2436_KD_YBX1_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.71202
NDUFA4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04756
heart_5b	HPA Tissue Sample Gene Expression Profiles	1.0	1.01861
TIMM23B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39819
PMC11131031-pwad060_suppl_supplementary_tables_s3.xlsx-FOXO1-knockout_bulk_RNA-seq-Unnamed_1_FOXO1	Rummagene Transcription Factor Associations 2026	1.0	null
ATP2B1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00216
GSE114284_4_v_0_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_10925_KO_Ctnnb1_SRP104153	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.54478
KA-71-CQ35_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.276605
GTF2IRD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02546
GSE202434,GSE202438_4_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
OCIMY5	CCLE Cell Line Gene CNV Profiles	-1.0	-1.90844
Perturb_12677_KO_Prelp_SRP365249	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.34652
GSE139016_3_v_1_disulfiram_human	RummaGEO Drug Perturbation Signatures	-1.0	null
LD-69-ZV56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.267024
496100459_PCx_no dementia_no TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.03203
Perturb_4857_OE_KLF4_SRP194102	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.03751
H3K4me3_erythroblast_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
CAKI1	DepMap CRISPR Gene Dependency	1.0	2.00893
ZD-78-BS65_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.257078
MDAMB436	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36684
SNU182	DepMap CRISPR Gene Dependency	1.0	2.65786
KP4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10833
GSE238116_1_v_2_egr1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE175787_8_v_0_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
DHRS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19142
SNU-620	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884902
regulation of translational initiation	GO Biological Process Annotations 2025	1.0	null
GSE239578_0_v_4_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_9676_KO_C9orf72_SRP242090	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-14.3435
cerebellar cortex_19 yrs_F_12832	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.04361
H3K27me3_erythroblast_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
testis_7e	HPA Tissue Sample Gene Expression Profiles	1.0	1.5922
dorsal thalamus_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.965593
10792_NON-TARGETING_NON-TARGETING	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.50153
GSE126777_3_v_1_otub1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me1_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GB-73-QS80_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.64093
TA-19-YA45_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.242968
GSE135030_3_v_6_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC6744561-41467_2019_12125_MOESM7_ESM.xlsx-Normal_309_TCF7_rep1_sorted_pea-Gene_Name_TCF7	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_18004_KO_Lrp1_SRP220333	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.4367
GSE205070_2_v_9_mertk_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
mRNA_SOX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
DPYSL2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03491
SYO1	DepMap CRISPR Gene Dependency	1.0	3.90301
dorsolateral prefrontal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.964584
WAC	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08774
Perturb_2286_KO_LATS1/LATS2_SRP215870	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.88748
nucleus accumbens, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.00484
MIA PACA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.961279
PMC10842785-NIHMS1948219-supplement-3.xlsx-GATA2_sense_vs_antisense-Gene_GATA2	Rummagene Transcription Factor Associations 2026	1.0	null
paraventricular nuclei, left of thalamus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.7247
primary auditory cortex (core)_8 yrs_M_12841	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.895412
GSE224004,GSE224005_0_v_1_chd4_human	RummaGEO Gene Perturbation Signatures	1.0	null
WDHD1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57879
GSE178714_6_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
4578_LIG1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.902873
Perturb_10899_KD_Mdr2_SRP055450	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.57361
GSE147613_1_v_0_cisplatin_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
corpus callosum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.10592
GSE200352_1_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE142210_9_v_0_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
PA-75-VL17_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.309781
FF-90-JK74_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.235728
GSE235066_4_v_3_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE185922_1_v_2_riok2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
GSE126402_5_v_3_tal1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in ventromedial extrastriate cortex (VP)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.922552
Perturb_15115_KD_Rtn4_SRP278924	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.47264
H3K27ac_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.854195
LA-42-ER00_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.530938
posteroventral (inferior) parietal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.8615
EE-01-DO31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.223768
HCC2935	CCLE Cell Line Gene CNV Profiles	-1.0	-1.87306
SNU-484	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.982637
HCC1428	CCLE Cell Line Gene CNV Profiles	1.0	1.77876
GSE146982_3_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE225982_2_v_0_ezetimibe_human	RummaGEO Drug Perturbation Signatures	1.0	null
MDAMB415	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46032
GSE225982_1_v_0_ezetimibe_human	RummaGEO Drug Perturbation Signatures	1.0	null
MBTPS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.26523
Perturb_11085_KO_Mir23_SRP292801	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.9377
GSE217541,GSE217543_0_v_2_tet1_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_10950_KO_31O21Rik_ERP017365	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.95743
PMC9999213-mmc3.xlsx-DEGs_CSc-DEA_NB_MSC_CSc_vs_NB_CSc_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
GSE226355,GSE226357_1_v_0_ybx1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE122509,GSE122513_2_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me1_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
496100542_PCx_no dementia_no TBI_82_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.53641
HC-11-RK51_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211791
RBM5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12548
GSE133087_5_v_0_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE158834_1_v_8_palm_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-4461	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
DC-82-AV25_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.266827
PMC12454715-13555_2025_1471_MOESM1_ESM.pdf-35-BATF2_BATF2	Rummagene Transcription Factor Associations 2026	1.0	null
caudal portion of VFC (area 44)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.84782
JB-75-NC66_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.268164
mRNA_T_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
YC-45-JD42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.248929
hsa-miR-146b-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
PMC4082627-12864_2014_6197_MOESM8_ESM.xlsx-ER_GATA3-Nearest_Ensembl_GATA3	Rummagene Transcription Factor Associations 2026	1.0	null
EE-98-PF86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.346619
GSE211128_2_v_1_angptl4_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-1976	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.921135
pontobulbar body	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.04356
orbital frontal cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.01839
CB-46-FO63_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.563495
Perturb_16878_KO_Trrap_SRP198540	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.46546
orbital frontal cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.03574
GSE88819_1_v_2_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
IF-03-OL58_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.230302
496100543_FWM_probable Alzheimer's disease_TBI_78_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.43649
GSE216043_3_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_4910_OE_NR5A1_SRP111466	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.7457
COTL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.49699
PMC9992472-41467_2023_36735_MOESM7_ESM.xlsx-SOX11_ChIP_in_IMR-32-Unnamed_13_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_4911_KD_ATF7IP_SRP156289	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.22642
GSE174498,GSE174500_0_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE160373_8_v_2_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BD-11-DV28_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.425663
hl60	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
testis_7a	HPA Tissue Sample Gene Expression Profiles	1.0	1.64301
mRNA_MEF2C_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
AF-00-QK19_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.329562
TPM4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.39717
Perturb_14920_Mut_Atxn3_SRP155020	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.0151
PMC10181932-41588_2023_1366_MOESM4_ESM.xlsx-Supplementary_Table_2-Supplementary_Table_2_Additional_information_for_all_SOX9-dependent_genes_SOX9	Rummagene Transcription Factor Associations 2026	1.0	null
negative regulation of translational initiation	GO Biological Process Annotations 2025	1.0	null
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.886092
posteroventral (inferior) parietal cortex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.19834
GSE60691_2_v_3_glutamine_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_2506_KD_NXF1_SRP226431	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.53061
H3K36me3_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DB-54-GQ68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216895
PMC8020666-pnas.2015855118.sd09.xlsx-LPS_4_chimp_DRSG_higherRes-Ensemble_gene_id_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
KE39	CCLE Cell Line Gene CNV Profiles	1.0	1.46348
GSE158834_2_v_13_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE148657_2_v_0_cd44_human	RummaGEO Gene Perturbation Signatures	-1.0	null
TGFBRAP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.11431
ND-39-PO34_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206814
temporal pole, right, superior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.09717
GSE183994_3_v_0_scml2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE88819_1_v_12_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
pancreas_6b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.37147
GSE147662_0_v_1_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE195503_3_v_0_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PPIP5K2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.44327
PMC11285331-cd-23-0539_table_s1_suppst1.xlsx-Lost_AR_Peaks-Unnamed_20_AR	Rummagene Transcription Factor Associations 2026	1.0	null
VMRCLCD	DepMap CRISPR Gene Dependency	1.0	2.49476
nucleus accumbens, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.4936
dorsolateral prefrontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.17219
Perturb_11140_KO_Myc/Mlxipl_SRP148418	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.22969
GSE151612_4_v_2_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
SHISA5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24466
dorsal lateral geniculate nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.49423
GSE174701_5_v_6_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
KG-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.64391
SKBR3	CCLE Cell Line Gene CNV Profiles	1.0	2.59917
GSE228106_0_v_2_paclitaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
PFSK1	DepMap CRISPR Gene Dependency	1.0	3.68771
Perturb_15327_KO_Ifng_SRP067752	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.93655
Perturb_2483_Mut_ESR1_SRP254635	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
KP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.30997
DA-20-VR86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.471087
H3K4me1_brain_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE125025_2_v_3_lyl1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
UTP14A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.00214
posterior (caudal) superior temporal cortex (area 22c)_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.51219
smoothmuscle_8b	HPA Tissue Sample Gene Expression Profiles	1.0	0.945727
BC-54-ON71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.399425
cerebellar cortex_23 yrs_M_12300	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.36783
A-498	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.886092
PMC12586484-41598_2025_22484_MOESM2_ESM.xlsx-Supplementary_Table_1-Supplementary_Table_1_DEGs_in_ATOH8-depleted_EVT_ATOH8	Rummagene Transcription Factor Associations 2026	1.0	null
BE-36-XE09_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.35143
CD-16-KY17_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.965631
Perturb_14354_KD_TUT4/TUT7_SRP120600	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.2066
Perturb_18144_KO_Fxr/Shp_SRP152043	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.4547
GSE129389_0_v_6_tropifexor_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
dorsolateral prefrontal cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.964584
GSE145323,GSE145324_1_v_0_rfx3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE100863,GSE100864_2_v_1_tet2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_10700_OE_Yap1_SRP132526	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.06339
midline nuclear complex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.68302
GSE109140_2_v_3_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
WC-95-BX35_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.207185
cerebellar cortex_30 yrs_F_12290	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.67495
Perturb_1716_KO_Fubp1_SRP174350	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-8.60337
FAM156B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.75233
GSE154767_1_v_5_adam10_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
pyramidal layer of caudal subiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.78293
testis_7f	HPA Tissue Sample Gene Expression Profiles	1.0	1.53323
GSE88819_7_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
MBD6	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.04077
KML1	DepMap CRISPR Gene Dependency	1.0	2.33448
Perturb_2440_KO_USP27X_SRP072918	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.01282
H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.38194
NCI-H345	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.833529
BATF2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19319
GSE175571_3_v_2_acsl6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
locus ceruleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.940479
GSE120612_4_v_0_etoposide_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE134375_6_v_5_stat3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE232218_1_v_0_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
retroparafascicular area of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.79663
GSE102870_3_v_0_nr1h4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE88819_5_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-146a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
MM.1S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.80657
Perturb_2520_KD_JUN_SRP357624	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.04902
GB-46-CK08_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.402662
gracile nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.861872
hsa-miR-320a	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
rostral division of VL	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.27204
inferolateral temporal cortex (area TEv, area 20)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.19035
FC-13-VS25_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.664938
cerebellar cortex_35 pcw_F_12295	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.1926
Perturb_11323_KO_Bmal1_SRP153814	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.8104
CALCOCO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39741
UGCG	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.21651
hsa-miR-3658	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
GSE158834_1_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
CSKMT	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.52496
SNU-216	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.75169
BD-96-HO33_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.237216
EN	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.20454
Perturb_17326_KO_Dis3_SRP328540	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
GSE109140_0_v_3_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_15117_KD_Rtn4_SRP278924	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	12.5964
DHRS13	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1289
KYM1	DepMap CRISPR Gene Dependency	1.0	2.03944
DC-43-KF54_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.648879
SNU-387	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.4013
BF-10-IO69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.206248
H3K4me3_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
GSE219274,GSE219276_2_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_8785_KO_HNF6_SRP217514	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.41474
NC-01-ET52_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.201658
hsa-miR-27a	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
NCIH510	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
IC-76-JU42_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.390505
hsa-miR-4487	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.99187
DF-00-BX35_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.21694
GSE146982_7_v_6_gpd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE146982_4_v_5_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
EB-67-WB79_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.289685
hippocampus (hippocampal formation)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.70944
negative regulation of translation	GO Biological Process Annotations 2023	1.0	null
GSE174751_0_v_1_postn_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
YH-13	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.0956
UD-78-YQ06_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.204138
GSE124304_1_v_0_abl1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE94011_2_v_1_pias3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GB-46-CK08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.89311
PMC11976269-41375_2025_2519_MOESM3_ESM.xlsx-ChIP_GATA2_Cluster_A-GeneName_GATA2	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_2552_KD_TRIM28_SRP067706	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
hsa-miR-4429	TargetScan Predicted Conserved microRNA Targets	1.0	0.632343
HMV-II	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-2.15781
GSE123943_4_v_3_sox1_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC7429792-40104_2020_487_MOESM3_ESM.xlsx-MSC_enriched_miRNA_target-NAME_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
hsa-miR-3156-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.997906
GSE211286_1_v_3_tcf12_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_14215_KO_Psen2_SRP254653	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.68131
Perturb_9679_KD_PIAS1_SRP295152	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.36031
LA-42-ER00_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.414917
Perturb_12970_KO_PRMT7_SRP342313	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
km3	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
H3K4me3_cortical plate_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GA-04-JM33_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.515395
GSE146982_7_v_6_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE160817_7_v_9_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
amygdaloid complex_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.904908
GSE123825_2_v_3_glud1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11426526-ppat.1012555.s011.xlsx-DEG_MDDC_Jurkat_LPS_vs_MDDC_JK-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_14352_KD_MOV10_SRP120600	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.11268
Perturb_14218_KO_Rtp1/Rtp2_SRP090933	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.59971
GSE233647_4_v_5_docetaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
mcf7	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
EF-80-OD07_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.323506
POLR2A_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_cerebellum_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BC-25-VR48_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.467723
superficial layers of caudal presubiculum	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.44791
UBR2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02364
GSE174498,GSE174500_2_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MRPL46	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.56171
GSE169205_0_v_5_sirt5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in frontal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.32749
SNU46	DepMap CRISPR Gene Dependency	1.0	3.33239
GTEx BloodVessel 20-29 vs 40-49	GTEx Tissue-Specific Aging Signatures	-1.0	-5.25017
GSE228106_3_v_4_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
VZ in superolateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.15115
Perturb_14925_OE_HsATXN3_SRP155020	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-9.15911
GSE139987_1_v_0_rosiglitazone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE200352_11_v_6_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE173232_4_v_3_sf3b1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
FB-66-UU47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.280672
GSE174383_2_v_0_ly6d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PC-87-OG75_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.678539
KYSE-70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.875913
NOCT	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.12433
VIIB, right, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.901503
MDA-MB-330	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.30811
GSE198165,GSE198166_8_v_4_zfp266_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE221327_4_v_2_clpp_human	RummaGEO Gene Perturbation Signatures	-1.0	null
CB-16-SY72_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.341806
NCI-H820	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.25102
GSE175787_13_v_0_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
USP28	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.07256
GSE114284_1_v_5_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE172020_0_v_3_testosterone_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MAGOH	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.98272
prepositus hypoglossal nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0268
GSE97352_3_v_2_dasatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE158182_5_v_0_pnpla3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Seminoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.163
RA-27-ST16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.229086
CORL105	CCLE Cell Line Gene CNV Profiles	-1.0	-1.54295
GSE195568_2_v_10_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
eukaryotic initiation factor 4E binding	GO Molecular Function Annotations 2025	1.0	null
GSE110248_1_v_6_romidepsin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE135244_0_v_1_trdmt1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE174498,GSE174500_3_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CC-70-BD07_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.231823
GSE77108_4_v_2_saha_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE63048_11_v_6_morc1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE142210_4_v_1_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC6438015-13148_2019_651_MOESM7_ESM.xlsx-Sheet1-Table_S2_Genes_exhibiting_both_significantly_increased_promoter_methylation_and_significantly_lowered_expression_in_CRISPR_TET2-KO_cells_TET2	Rummagene Transcription Factor Associations 2026	1.0	null
MED30	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.42724
Perturb_4182_KO_Foxp1_SRP102696	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.10192
RPMI6666	CCLE Cell Line Gene CNV Profiles	-1.0	-2.69116
GSE112860_0_v_1_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC9894241-pnas.2211429119.sd05.xlsx-G1_REST-Dataset_S5_Differentially_expressed_genes_in_G1-G8_REST	Rummagene Transcription Factor Associations 2026	1.0	null
FF-86-NH56_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.463206
6774_PRMT1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.555917
PMC9992472-41467_2023_36735_MOESM7_ESM.xlsx-SOX11_ChIP_in_IMR-32-Unnamed_12_SOX11	Rummagene Transcription Factor Associations 2026	1.0	null
ventrolateral prefrontal cortex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.53055
hsa-miR-2964a-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.13535
hsa-miR-3647-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
GSE88819_6_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BA-15-VE07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.292208
GSE187006_3_v_1_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCC1954	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52476
cerebellar cortex_3 yrs_F_12836	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.12176
NCI-H2023	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01767
GSE98898_8_v_1_hoxa1_human	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-491-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
DB-21-FY25_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.23745
GTEx Lung 20-29 vs 60-69	GTEx Tissue-Specific Aging Signatures	1.0	9.16873
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	1.77997
Perturb_6449_KD_ZFAND3_SRP224924	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.70118
RFC1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.72842
GSE189789_0_v_1_oridonin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
MM1S	CCLE Cell Line Gene CNV Profiles	-1.0	-1.94123
496100416_FWM_dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	3.63015
GSE109530,GSE109531_2_v_0_hdac3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
SEMA4C	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.0365
cerebellar cortex_21 pcw_F_12365	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.43532
PITX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57304
GSE254526,GSE254528_0_v_1_phf19_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC8709578-elife-69843-supp2.xlsx-HSF1_KO_2_E2_1h-Nearest_Ensembl_HSF1	Rummagene Transcription Factor Associations 2026	1.0	null
AD-51-FB60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.209547
CA1 field, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.40886
lateral posterior nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.57212
GSE146074_9_v_8_ly6e_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
nucleus of diagonal band	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.04697
GSE152432_1_v_4_zrsr2_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
primary visual cortex (striate cortex, area V1/17)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.985147
PMC12685885-Table1.xlsx-Table_S9-Du_PanCancer_SOX6_TrsFib_SOX6	Rummagene Transcription Factor Associations 2026	1.0	null
mRNA_ASCL1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
Perturb_1724_KO_Tet2_SRP353433	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	13.9396
NCI-H716	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.876604
Perturb_6176_KO_Opn1lw/Ep300_SRP201904	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.52458
HCC38	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.958956
negative regulation of translation	GO Biological Process Annotations 2025	1.0	null
Perturb_2365_KD_MUC1_SRP173457	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.69338
GSE147662_3_v_1_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
EC-62-OE64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.874218
GSE157050,GSE157051_2_v_4_metformin_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.37027
Perturb_4165_KO_Mir29_SRP229364	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.10325
GSE168807_0_v_8_dnmt3a_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_11299_KO_Bmal1_SRP153814	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.07448
GSE168401_1_v_3_harmine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE226249_0_v_8_pirfenidone_human	RummaGEO Drug Perturbation Signatures	1.0	null
IC-05-AW29_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216579
EXOC3L1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.49826
PRNP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.76125
GSE135030_8_v_2_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE158834_10_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE202434,GSE202438_13_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
496100661_PCx_no dementia_TBI_90-94_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.06032
GSE174383_1_v_0_ly6d_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
496100663_TCx_no dementia_no TBI_86_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.0613
GSE224763_1_v_0_rif1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
CEP192	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.23241
cerebellar cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.17057
Perturb_2458_KD_ESR1_SRP268806	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
RBFOX2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.04955
GSE126777_0_v_1_otub1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
JD-87-MR82_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.262182
Edinger-Westphal nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.972932
primary auditory cortex (core)_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.926376
GSE146982_4_v_5_gpd1_human	RummaGEO Gene Perturbation Signatures	1.0	null
MB-32-LQ97_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.272363
upper (rostral) rhombic lip_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.88674
NF-21-HQ00_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.251192
GSE146982_4_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	1.0	null
skeletalmuscle_a	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.85091
JEKO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.48718
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_C91-PL_LPS_vs_DC_Jurkat-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
GB-46-CK08_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.431512
paracentral lobule, posterior part, right, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.979
hsa-miR-4738-3p	TargetScan Predicted Conserved microRNA Targets	1.0	1.11641
SAS	Sanger Dependency Map Cancer Cell Line Proteomics	-1.0	-3.8789
primary motor cortex (area M1, area 4)_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.976153
FE-10-KQ78_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	1.14856
H3K4me1_thymus_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
hsa-miR-3137	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
PMC12518476-10067_2025_7574_MOESM9_ESM.xlsx-Sheet2-RNAseq_DEGs_of_KD_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE228106_3_v_5_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
BC-01-JL64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.357657
CA-60-LK14_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.27584
PDHB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28744
GSE195559_6_v_1_notch1_human	RummaGEO Gene Perturbation Signatures	1.0	null
CD-41-RE87_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216289
GSE80098,GSE80366_0_v_8_progesterone_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC9999213-mmc3.xlsx-DEGs_CSc-DEA_NB_MSC_EC_CSc_vs_NB_CSc_MSC	Rummagene Transcription Factor Associations 2026	1.0	null
GSE131377_1_v_3_spocd1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
FD-35-PQ00_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.206199
USP37	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14418
GSE175787_4_v_0_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
AA-01-JO26_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.360809
medial habenular nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.81877
Uterine corpus endometrial carcinoma	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.091
PMC10082046-41467_2023_37049_MOESM7_ESM.xlsx-Sheet1-Supplementary_Data_4_Genes_upregulated_in_ASPS-KY_cells_by_ASPSCR1-TFE3_knockdown_TFE3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE202434,GSE202438_3_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SW1990	DepMap CRISPR Gene Dependency	1.0	2.7198
FD-29-MM50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.330558
H3K27ac_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HCT116	DepMap CRISPR Gene Dependency	1.0	2.00075
inner SZ in posteror frontal cortex (motor cortex)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.889146
MED9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.46709
AB-71-CI37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.209597
Perturb_15705_KO_Rnf20_SRP304263	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.28117
Perturb_14956_OE_SOX17_SRP287780	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.68919
5649_NFKBIE_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.615098
Perturb_10182_KD_RAD21_SRP225887	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.3266
KB-46-EJ60_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.330222
DARS1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08036
H3K4me1_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
layer III of caudal entorhinal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.935098
GSE178714_5_v_7_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE178292_0_v_3_melphalan_human	RummaGEO Drug Perturbation Signatures	-1.0	null
JHH6	DepMap CRISPR Gene Dependency	1.0	2.24689
CTCF_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2081	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20399
inferolateral temporal cortex (area TEv, area 20)_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.961724
C1orf109	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27352
CC-04-WK34_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.222478
HIPK2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-4.02788
H3K4me3_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CB-31-UO16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.213017
GSE154767_2_v_0_adam10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KA-29-AB08_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.297687
VZ in dorsomedial frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.09612
GSE142210_2_v_10_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
testis_7d	HPA Tissue Sample Gene Expression Profiles	1.0	1.63593
GSE151612_4_v_7_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE195663_0_v_3_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.1963
GSE125862_2_v_1_dexamethasone_human	RummaGEO Drug Perturbation Signatures	1.0	null
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.982637
VZ in primary somatosensory cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.835719
EF-80-OD07_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.731772
GSE158182_4_v_7_pnpla3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebellar cortex_21 pcw_M_12886	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.23775
GSE140322_3_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE112761,GSE112767_1_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
lateral nucleus of pulvinar	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.15656
GSE143662_3_v_1_dcp2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
BC-54-ON71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.381809
GD-59-OG21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.514309
SSBP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.88456
JE-04-LS32_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.33168
GSE223008_4_v_12_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K27me3_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF407	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.17268
2376_DROSHA_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.6626
PC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.26527
496100387_TCx_no dementia_no TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.03469
GSE195503_3_v_2_progesterone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
K562_PJ34_10µM_24h	Sci-Plex Drug Perturbation Signatures	1.0	0.0156473
HCC70	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.998061
A-427	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20399
H3K27me3_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE217405_0_v_1_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-4662a-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
CA-68-KG29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.308148
BC-13-OQ01_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.450068
NCI-H1568	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13791
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.833529
midbrain reticular formation, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.971116
GSE142210_9_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
NOTCH_INHIBITION_GDS2794_61_human_MOLT4 (T-cell acute lymphoblast leukemia) cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GSE112860_0_v_4_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE157282_0_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
TNFRSF18	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.27584
GSE181003_1_v_0_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2359_KD_TRIM25_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.63949
CDC14B	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.54886
PMC8600817-12951_2021_1120_MOESM2_ESM.xlsx-Table_S4-Table_S4_Pan_PPAR-iMSC-EV-induced_differentially_expressed_genes_in_fatty_acid-treated_HepG2_cells_PPARA	Rummagene Transcription Factor Associations 2026	1.0	null
GB-73-QS80_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.419211
hacat	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
BC-56-CP81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.792221
Perturb_2468_OE_MIR193BHG_SRP268862	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.95799
hsa-miR-4644	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
GSE130956_0_v_1_icaritin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_4909_KD_IMP1_SRP070819	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.31323
GSE88819_3_v_4_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE132369,GSE132371_1_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	1.0	null
WD-62-UB45_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.219741
ACCS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01411
SW982	DepMap CRISPR Gene Dependency	1.0	2.62139
PMC10794847-mmc3.xlsx-PBRM1_KD_down-Table_S2_Differentially_expressed_genes_with_PBRM1_knockdown_in_the_differentiation_state_Related_to_Figure_2_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_9710_KD_SMARCB1_SRP279089	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	8.78986
GSE240386,GSE242143_8_v_6_morc2_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE211128_3_v_5_angptl4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
mediodorsal nucleus of thalamus_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.886319
496100620_FWM_possible Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.13919
arcuate nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.50909
NCIH28	DepMap CRISPR Gene Dependency	1.0	2.83858
rostral subdivision of paraventricular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.0514
HB-06-WU12_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.534838
PMC11426526-ppat.1012555.s014.xlsx-DEG_DC_Jurkat_LPS_vs_DC_JK-Unnamed_5_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_2438_KD_ZNF589_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.3624
CD-16-KY17_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.615
LUDLU1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42096
Perturb_2575_KD_LINE1_ERP011233	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.368
Perturb_10852_KO_Smyd3_SRP057101	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.22179
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23359
DCTN5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.93541
H3K9ac_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
LHX4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.63482
hepg2	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
GSE77108_4_v_7_saha_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE81803,GSE81912_0_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
cerebellum_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.91892
GSE171572_3_v_2_tp53_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE158834_11_v_8_palm_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_2448_KD_ESR1_SRP201903	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.31681
Perturb_15851_KO_RbpJ_SRP165224	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.51891
ventrolateral prefrontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09392
DE-99-OT37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.552844
496100514_FWM_no dementia_TBI_95-99_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.12978
H3K27me3_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.37027
GSE133087_1_v_2_metformin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
HD-29-LW24_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.91549
Perturb_12914_KD_FUT8_SRP342334	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
BC-63-DM76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.475237
FE-10-KQ78_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.417596
METTL7A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.03806
hsa-miR-548p	TargetScan Predicted Conserved microRNA Targets	1.0	0.265648
GSE68925_1_v_0_fasudil_human	RummaGEO Drug Perturbation Signatures	-1.0	null
SBNO1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.42761
GSE165548_2_v_8_gemcitabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
CCRF-CEM	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.32067
GSE101112_6_v_4_j147_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-885-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
GSE132369,GSE132371_2_v_0_cccp_human	RummaGEO Drug Perturbation Signatures	1.0	null
NSDHL	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.26811
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K9me3_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
SD-69-QA40_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.298936
GSE195559_6_v_4_notch1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
WC-09-GD62_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.246866
Perturb_2351_KD_CNBP_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.76908
JHUEM3	CCLE Cell Line Gene CNV Profiles	1.0	1.62774
EW1	DepMap CRISPR Gene Dependency	1.0	2.47653
GSE152699,GSE152723_0_v_1_vemurafenib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K9me3_G1E_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
DA-19-JA87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.245722
CLIP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.06974
GSE77108_6_v_7_saha_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE102505_4_v_0_tunicamycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
496100610_TCx_no dementia_no TBI_84_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.3976
GSE95688_1_v_0_glutathione_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
inferolateral temporal cortex (area TEv, area 20)_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.1513
H3K4me3_testis_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
DE-34-DT75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.417649
hsa-miR-3685	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
PMC8020666-pnas.2015855118.sd09.xlsx-LPS_4_chimp_DRSG_higherRes-Hg_gene_id_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
KB-77-BA46_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205586
GSE220058,GSE220059_0_v_1_prrc2b_human	RummaGEO Gene Perturbation Signatures	1.0	null
LC1SQSF	CCLE Cell Line Gene CNV Profiles	1.0	1.75873
mRNA_ASCL2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.63295
LD-37-JE11_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.298337
u937	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
SCLC-22H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73676
CC-93-RP38_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205402
PRPF40A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.1541
GSE183101_0_v_1_hvcn1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ventromedial hypothalamic nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.60522
CHAGOK1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.10757
H3K9me3_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2595	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.29225
AGXT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.28455
GSE151612_4_v_10_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
CL14	CCLE Cell Line Gene CNV Profiles	-1.0	-1.59158
BE-66-UB12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.210332
MCIXC	DepMap CRISPR Gene Dependency	1.0	10.9022
UA-39-TN76_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.383104
Perturb_16845_KO_Kcnj10_SRP241402	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.84032
JD-44-KF86_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.601484
GSE152734,GSE152735_2_v_0_pbrm1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE158834_7_v_13_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
7513_RPS24_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.515564
hsa-miR-27b	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.843347
ALDH3A2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.28014
CCLFPEDS0003T	DepMap CRISPR Gene Dependency	1.0	5.16025
GSE205070_1_v_6_mertk_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE133213_4_v_15_znrf3_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ME-31-RM40_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.330152
layer III of area 35c	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.47774
Perturb_2353_KD_FOXD4L6_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
Perturb_2556_KO_TET2_SRP163132	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	9.48772
PMC9894241-pnas.2211429119.sd05.xlsx-G4_REST-Dataset_S6_Differentially_expressed_genes_in_G1-G8_REST	Rummagene Transcription Factor Associations 2026	1.0	null
MAPK1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.10201
hsa-miR-1303	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.7397
EM2	DepMap CRISPR Gene Dependency	1.0	2.01792
Perturb_8498_OE_Sox9_SRP375106	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.41638
hsa-miR-543	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
GSE142210_11_v_7_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
496100596_FWM_dementia_TBI_89_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.45722
Perturb_15873_KO_SMARCB1_SRP293781	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.11529
testis_4a	HPA Tissue Sample Gene Expression Profiles	1.0	1.28374
GSE100217_2_v_3_ethanol_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE239578_0_v_6_cxadr_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
reuniens nucleus (medioventral nucleus) of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.29289
HCC2218	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.968298
GSE138001_2_v_4_rorb_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
JHU029	DepMap CRISPR Gene Dependency	1.0	3.93618
Perturb_3487_KO_Kctd13_ERP112326	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.30785
ALDH7A1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.0639
CDK19_knockdown_148_GSE32108	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	2.13571
Perturb_11265_KO_Bmal1_SRP260650	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	6.32317
cerebellar cortex_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.09539
GSE135030_3_v_2_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE202434,GSE202438_13_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H2171	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.48657
AE-07-IZ32_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.338974
JEKO1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.78924
GSE135030_3_v_9_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me3_ES-Bruce4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
RERF-LC-OK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.06686
GSE178714_6_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
central gray of the pons, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.30826
HE-80-BQ08_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.239503
PMC10794847-mmc6.xlsx-PIAS1_KD_down-Table_S5_Genes_differentially_expressed_with_PIAS1_knockdown_in_keratinocytes_cultured_in_the_differentiation_condition_Related_to_Figure_5_AR	Rummagene Transcription Factor Associations 2026	1.0	null
H3K4me3_ES-E14_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
PMC8709578-elife-69843-supp2.xlsx-HSF1_KO_2_E2_30min-Nearest_Ensembl_HSF1	Rummagene Transcription Factor Associations 2026	1.0	null
GSE135030_3_v_10_fludarabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
JC-96-ID26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.201551
mRNA_TCF7L2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE144838_2_v_5_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_11316_KO_Noct_SRP120584	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.79795
liver	HPA Tissue Gene Expression Profiles	-1.0	-1.01784
VZ in caudal subicular cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.95623
WC-16-IR43_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.232364
GSE179693,GSE179694_4_v_2_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
NCIH522	CCLE Cell Line Gene CNV Profiles	-1.0	-2.78849
GSE174498,GSE174500_2_v_1_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NCI-H889	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.919022
PPIL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00326
NCI-H920	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.08263
GSE88819_1_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
rostral ventral respiratory cell group	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.854275
Perturb_15460_KD_CSN5_SRP316687	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.30526
H3K4me3_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CP in temporal polar cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.842826
GSE94849_7_v_5_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_7971_KD_Suz12_SRP045805	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	16.6411
anterior (rostral) cingulate (medial prefrontal) cortex_16 pcw_M_12287	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.1157
SK-MM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84729
GSE95688_1_v_3_glutathione_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
GSE175787_8_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
1844_CPSF6_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.817951
pancreas	HPA Tissue Gene Expression Profiles	-1.0	-0.918719
H3K4me1_lung_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
GSE195663_7_v_3_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE125211_2_v_3_nicotinamide_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE201309_1_v_0_matrine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
medial subdivision of area 10	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.34756
Perturb_2481_Mut_ESR1_SRP254635	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
SK-BR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.09686
POU5F1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.5424
MTHFD1L	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.25711
GSE88819_3_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
ventrolateral prefrontal cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.15212
JD-44-KF86_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.473234
GSE114992,GSE114993_8_v_5_irf5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BE-38-UW72_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.544495
MRTO4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.57102
GSE162739_2_v_1_bap1_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	-1.28829
interpositus (intermediate) nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.20092
2313_DNM2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.624728
Perturb_13297_OE_Pik3ca_SRP173204	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.06898
GSE147056_0_v_1_actl6b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
CA-70-EK39_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.20737
Perturb_11290_KO_Bmal1_SRP153814	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.84566
BB-77-QQ71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.45067
GSE70499_5_v_2_bmal1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H522	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.26809
inferior nucleus of pulvinar	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.18542
IC-05-AW29_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.271879
Perturb_2628_OE_HPGD_SRP292282	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
Perturb_5390_KO_TYK2_SRP350422	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.7705
GSE133505_5_v_4_myf6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
cingulum bundle, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.78433
PMC10319804-41467_2023_38747_MOESM10_ESM.xlsx-cARID1A_KD_genes_down-gene_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_14135_OE_Rps6_SRP104453	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.64031
cingulum bundle, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.997155
GSE154936_3_v_2_remdesivir_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_2294_KD_DDX5_SRP139509	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	3.47073
H3K4me3_cerebellum_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
6845_PSMA5_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.617748
cerebellar cortex_11 yrs_F_12289	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.952602
GSE192870_2_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
FE-64-KC49_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.20886
S0-EE-XMXE_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.968624
GSE95077_1_v_3_amiloride_human	RummaGEO Drug Perturbation Signatures	-1.0	null
KNS42	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38937
Perturb_8480_KD_CSDE1_SRP117243	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.06178
SNU719	DepMap CRISPR Gene Dependency	1.0	2.03624
GSE178714_1_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE111102,GSE111105_3_v_5_pparg_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE175787_8_v_2_rhoc_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_2606_KD_PTEN_SRP175252	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	11.9514
YA-85-VH07_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.294714
CC-17-JL38_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.305224
fastigial nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.08222
BA-40-IU73_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.211711
GSE158182_5_v_7_pnpla3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in medial temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.910013
GSE202434,GSE202438_13_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE119978,GSE180930_0_v_1_cisplatin_human	RummaGEO Drug Perturbation Signatures	1.0	null
XD-03-FM54_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.393907
VZ in subcallosal region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.79674
GSE139992_1_v_0_mboat7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE154350_1_v_0_ascl2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE155031_5_v_0_dextran_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE211128_9_v_0_angptl4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.833529
JHH7	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33794
WB-82-EL69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.218143
AD-51-FB60_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.217289
BV173	CCLE Cell Line Gene CNV Profiles	1.0	1.64272
UBN2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.16221
CCNE1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.288
GSE131161_1_v_4_rarres1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
5447_NADSYN1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.753037
QA-50-YO37_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.88213
peripheral portion of GPi	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.31484
small intestine	HPA Tissue Protein Expression Profiles	1.0	1.53671
GSE107505_0_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
superior temporal gyrus, left, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.89204
FC-20-EQ58_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.296375
GSE94849_7_v_0_pinometostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
HCC2935	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.93321
GSE122990,GSE123061_0_v_1_urod_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KE-37	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.15987
Perturb_3508_KO_Trp53_DRP003641	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.51205
GSE136622_0_v_3_srpk3_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_2427_KD_CTBP1_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.10417
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
FUBP3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.32521
GSE228261_0_v_1_elesclomol_human	RummaGEO Drug Perturbation Signatures	1.0	null
HB-75-KT12_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.466026
Perturb_16850_KO_Hnrnph1_SRP068520	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.82135
GSE162739_7_v_1_bap1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ADCYAP1R1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16251
GSE185519_3_v_0_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PDLIM4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.09305
HOXD11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.84576
HKA1	DepMap CRISPR Gene Dependency	1.0	2.2384
BF-94-CQ58_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.258195
WC-09-GD62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.32635
GD-66-XE49_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.240724
hsa-miR-199a-5p	TargetScan Predicted Conserved microRNA Targets	1.0	1.26663
GSE183251_4_v_6_cyp2c70_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE214382,GSE214383_1_v_2_ascl1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
AB-17-WP43_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.28838
ME-31-RM40_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.695965
OVCA 432	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43831
ventrolateral prefrontal cortex_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.964584
caudal ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.40837
CA-48-SW47_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.355938
Perturb_2531_KD_RAD21_SRP323742	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.98201
CSRP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.67348
TRIM4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15149
inner SZ in primary visual cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.18638
PLRG1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07582
GSE213228_4_v_0_irak2_human	RummaGEO Gene Perturbation Signatures	1.0	null
SKMM2	CCLE Cell Line Gene CNV Profiles	1.0	1.75177
HCC2814	CCLE Cell Line Gene CNV Profiles	-1.0	-1.3806
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.40174
amygdaloid complex_15 yrs_M_12299	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.57107
NCIH2171	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42621
stratum pyramidale of caudal CA1	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.930238
ED-71-GA72_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.230137
CA SKI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884902
paraventricular nucleus of hypothalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.94634
KNL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.50277
EXOC3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.55853
PC-87-OG75_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.354951
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE161864,GSE161866_4_v_3_ror2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCIH2122	DepMap CRISPR Gene Dependency	1.0	13.3735
GSE211128_9_v_5_angptl4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE158834_11_v_8_palmitic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
hsa-miR-320c	TargetScan Predicted Conserved microRNA Targets	1.0	0.568687
GSE88819_7_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE142210_2_v_6_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
LA-44-KW22_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.282236
GSE140322_0_v_2_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
choroid plexus of the lateral ventricle	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.35451
GSE223008_11_v_12_calhm6_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in dorsomedial extrastriate cortex (V2)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.976808
Perturb_11014_KO_Popdc3_ERP017365	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.21094
GSE181517_0_v_1_doxorubicin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GC-07-UO80_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.337519
GSE158834_2_v_13_palm_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE205730,GSE205731_2_v_3_tazemetostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSDMB	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.06973
BF-97-LS55_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.403661
HCC1569	CCLE Cell Line Gene CNV Profiles	1.0	1.44854
GSE146687_2_v_5_eribulin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
ventral lateral nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.52128
GSE120216_3_v_0_cbfb_human	RummaGEO Gene Perturbation Signatures	-1.0	null
orbital frontal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.941502
parataenial nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.41469
IF-87-AU84_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.3141
Perturb_8636_KO_Foxp1_SRP102696	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	6.59751
GSE202434,GSE202438_7_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_2272_KO_Mettl3_SRP110576	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-13.5621
GSE174735_4_v_3_il22_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
inner SZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.863318
BD-93-AM31_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.235382
posterior (caudal) superior temporal cortex (area 22c)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.43849
HEC251	DepMap CRISPR Gene Dependency	1.0	2.63729
Perturb_11209_KO_Mettl14_SRP339507	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.45529
ALG8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.2022
MV-4-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.895793
THUMPD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.02067
GSE139455_2_v_3_stat3_human	RummaGEO Gene Perturbation Signatures	1.0	null
SPAG9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07588
Perturb_849_KD_Arnt2_SRP166456	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.38929
Perturb_3471_Mut_Atxn1_SRP148491	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	16.2003
GSE218060_1_v_0_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_2435_KD_TSHZ3_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.28668
COV318	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.71077
OE-31-YC41_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.227621
GSE160373_5_v_4_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AC-30-XU83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.265492
PRCP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.30503
cingulate gyrus, retrosplenial part, left, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-0.836835
GSE196671_5_v_0_obox4_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE126402_1_v_3_tal1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
supraoptic nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.11053
GSE246195,GSE246305_2_v_0_sin3a_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE81803,GSE81912_4_v_1_fmr1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.4013
GSE142210_4_v_6_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
EFM192A	CCLE Cell Line Gene CNV Profiles	1.0	2.15861
PMC9338531-13046_2022_2445_MOESM18_ESM.xlsx-AASE_Cal62_KD-GeneID_AR	Rummagene Transcription Factor Associations 2026	1.0	null
DD-74-PJ26_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.344971
Perturb_13981_KD_Elavl2/Elavl3/Elavl4_ERP133202	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-14.7542
GSE163275_1_v_0_irf8_human	RummaGEO Gene Perturbation Signatures	1.0	null
H3K4me3_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2543_KD_SNHG7_SRP179498	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
AD-28-GJ71_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.486149
GSE88819_0_v_10_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE102870_11_v_0_nr1h4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE216043_7_v_6_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE213228_2_v_0_irak2_human	RummaGEO Gene Perturbation Signatures	1.0	null
NA-30-HS87_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.305932
Perturb_3448_KO_Thap1_SRP173478	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-5.59136
H3K27me3_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC38	CCLE Cell Line Gene CNV Profiles	1.0	1.82529
Perturb_8786_Mut_HNF6_SRP217514	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.67779
dorsal subdivision of VLC	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.45552
S0-EE-Y79N_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.414177
KYSE-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.958956
GSE131660_1_v_0_piperlongumine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC12623973-41467_2025_64981_MOESM3_ESM.xlsx-downregulated-c0_ACKR4_SCS_ceiling_LEC_TWIST1	Rummagene Transcription Factor Associations 2026	1.0	null
PMC12611713-Table2.xlsx-Sheet_1-Training_Database_AND_Validation_Database_NOT_Diabetes_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
496100285_TCx_probable Alzheimer's disease_no TBI_90-94_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-3.05487
BE-38-UW72_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.782975
hsa-miR-516b	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.809003
GSE205163,GSE205164_2_v_8_znf808_human	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_6527_KO_Trp53/Nf1/Pten/Pot1a/Pot1b_SRP293265	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	1.84895
CAOV4	DepMap CRISPR Gene Dependency	1.0	2.18203
GSE169691_1_v_2_saha_mouse	RummaGEO Drug Perturbation Signatures	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.4013
DB-41-IH69_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.239522
NB5	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.82488
cerebellar cortex_10 mos_M_12977	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.08293
Perturb_3411_KO_Zeb2_SRP072845	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.49879
GSE146982_0_v_6_gpd1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
posteroventral (inferior) parietal cortex_21 yrs_F_13057	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.35209
DF-00-BX35_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.290328
GSE219195_1_v_5_rbm12_human	RummaGEO Gene Perturbation Signatures	-1.0	null
AB-04-NN16_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205539
BE-36-XE09_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.228504
GSE182179_2_v_3_kdsr_human	RummaGEO Gene Perturbation Signatures	-1.0	null
VZ in midlateral temporal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.960617
primary auditory cortex (core)_19 yrs_F_12832	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.911514
NCIH446	CCLE Cell Line Gene CNV Profiles	-1.0	-1.7511
HCC1419	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.95437
GSE88819_11_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
PMC8948659-ADVS-9-2104491-s013.xlsx-Sheet1-Supplemental_Table_9_related_to_Figure_7_Differential_genes_highly_correlated_with_TP53_deletion_in_H929_cells_by_RNA-seq_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
AXIN1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.02279
BFTC909	CCLE Cell Line Gene CNV Profiles	1.0	1.42234
GSE195568_2_v_4_palbociclib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE149123,GSE149128_1_v_0_cdk7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_4134_KO_Trrap_SRP198540	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-10.5971
CALU-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.960614
1840_CPSF2_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.544764
BHMT2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.26743
anterior (rostral) cingulate (medial prefrontal) cortex_37 yrs_M_12303	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	2.42917
GSE234647_1_v_3_regorafenib_human	RummaGEO Drug Perturbation Signatures	1.0	null
PMC8567138-Table_2.xlsx-Sheet1-IGFBP5_AND_IGFBP7_NOT_IGFBP3_NR4A2	Rummagene Transcription Factor Associations 2026	1.0	null
LIN28A	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.15093
7754_SEC62_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.539043
centromedian nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.13128
PD-70-VS77_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.205854
PACADD188	DepMap CRISPR Gene Dependency	1.0	4.34239
CF-97-KZ12_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.231303
outer portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.41008
mRNA_CDX2_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	1.0	null
GSE96777,GSE96778_1_v_0_zbtb4_human	RummaGEO Gene Perturbation Signatures	1.0	null
EF-74-KW12_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.699982
GSE213228_1_v_3_irak2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC11250262-41588_2024_1798_MOESM4_ESM.xlsx-ST18_665_top_menarche_genes-gene_ST18	Rummagene Transcription Factor Associations 2026	1.0	null
GSE149123,GSE149128_3_v_0_cdk7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE200352_9_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
reticular nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.901845
COLO 741	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02532
H3K27me3_megakaryocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GA-04-SF76_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.341988
GSE207728,GSE207808_2_v_1_c646_human	RummaGEO Drug Perturbation Signatures	-1.0	null
outer SZ in posterior parahippocampal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.88404
GSE178714_5_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SLX9	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.39191
DE-99-OT37_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.463711
GSE95688_7_v_2_glutathione_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE192663_3_v_5_acly_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
DYNLRB1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.03039
ventral posterior inferior nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-2.41781
RC-K8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.98079
H3K27me3_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PMC10771438-41598_2023_51082_MOESM1_ESM.xlsx-Day21-Supplementary_Dataset_1_List_of_genes_differentially_expressed_during_NS_PC_differentiation_between_ROR2_KD_cells_and_control_cells_AR	Rummagene Transcription Factor Associations 2026	1.0	null
GSE230263,GSE230265_5_v_1_runx1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE48812_8_v_6_sulforaphane_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC7617064-EMS151900-supplement-Extended_Data_Figure_5_Source_Data.xlsx-CLC_D9_DEG-Logfold_change_threshold_1_0_1_CENPX	Rummagene Transcription Factor Associations 2026	1.0	null
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.16353
Perturb_11001_KO_Mtnr1b_ERP017365	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.11871
PMC8020666-pnas.2015855118.sd09.xlsx-LPS_24_chimp_DRSG_higherRes-Hg_gene_id_IRF6	Rummagene Transcription Factor Associations 2026	1.0	null
cuneiform nucleus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.857815
H3K4me3_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
EIF4EBP1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.32582
hsa-miR-556-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.131849
UACC893	DepMap CRISPR Gene Dependency	1.0	2.14082
HCC2157	CCLE Cell Line Gene CNV Profiles	1.0	1.43831
hsa-miR-33a	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
mRNA_NRIP1_19796622	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	-1.0	null
GSE202434,GSE202438_15_v_14_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
IF-31-RN78_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216299
CDK4_knockdown_225_GSE8866	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	-1.0	-1.7581
BD-69-XG81_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.832353
SZ in midcingulate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.928451
Perturb_5935_KD_MYBBP1A_SRP271175	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-16.6211
Perturb_2236_KO_Malat1_SRP193997	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	5.34108
Perturb_5635_KD_JQ1_SRP142503	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-5.57581
HB-06-WU12_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.6051
PMC10550934-41467_2023_41927_MOESM4_ESM.xlsx-degenes_beatAML_CEBPA-NT_Fig1c-Gene_Symbol_CEBPA	Rummagene Transcription Factor Associations 2026	1.0	null
lateral tuberal nuclei	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	3.24646
dorsolateral prefrontal cortex_12 pcw_F_12835	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.06884
GSE172016_2_v_0_paclitaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K27me3_erythroblast_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GSE174701_5_v_2_maml3_human	RummaGEO Gene Perturbation Signatures	-1.0	null
C21orf91	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.17899
GSE88819_5_v_9_tug1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE174498,GSE174500_5_v_8_asparaginase_human	RummaGEO Drug Perturbation Signatures	1.0	null
UMUC16	DepMap CRISPR Gene Dependency	1.0	2.06773
PMC5989213-41467_2018_4462_MOESM8_ESM.xlsx-3-Supplementary_Data_3_List_of_2687_genes_differentially_expressed_between_SETBP1-G870S_and_Empty_293_FLP-In_lines_SETBP1	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_10853_KO_Mkp1_SRP169858	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
HEY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.968298
BECKER	DepMap CRISPR Gene Dependency	1.0	6.71946
GSE200352_5_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ATL3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16568
GSE160817_7_v_6_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SREBP2-21459322-LIVER-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
GSE151612_0_v_2_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
FC-68-LJ11_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.243382
GSE178714_6_v_7_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE95077_1_v_4_amiloride_human	RummaGEO Drug Perturbation Signatures	-1.0	null
Perturb_2235_KO_Irf8_SRP270893	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.70102
GSE151829,GSE151831_5_v_8_aire_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE154767_2_v_5_adam10_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
KC-48-OO62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.594681
Perturb_12127_KO_Dnmt3a_SRP033096	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-16.6196
IE-80-DC24_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.25502
CE-23-HP88_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.348003
GSE216273,GSE216292_0_v_6_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
NE-94-VE83_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.348087
heart muscle	HPA Tissue Gene Expression Profiles	1.0	1.28536
KM-12	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921356
raphe magnus nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.02098
MGE-Lateral region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.13431
H3K27me3_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9me3_G1E_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2803	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.44889
PSAT1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.25865
amygdaloid complex_8 pcw_M_13058	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.913173
Perturb_4155_Mut_Dnmt3a_SRP229364	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.86303
GSE96777,GSE96778_3_v_2_zbtb4_human	RummaGEO Gene Perturbation Signatures	-1.0	null
SCLC21H	CCLE Cell Line Gene CNV Profiles	-1.0	-1.8304
DA-10-HD17_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.265076
liver_c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.04707
HCC827	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.919022
GSE102505_5_v_0_tunicamycin_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_2560_KO_HSF1_SRP288220	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	2.78982
GSE114992,GSE114993_8_v_2_irf5_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
AB-71-CI37_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.344745
inferior olivary complex, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.936076
occipital pole, left, inferior aspect	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-2.65554
H3K4me3_bone marrow_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2D	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.08526
GSE233647_2_v_3_docetaxel_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE128730_4_v_2_neratinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
superior frontal gyrus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.21198
Perturb_2425_KD_BNC2_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.24217
GSE183251_1_v_5_cyp2c70_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_7131_KD_SETD8_DRP009168	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-1.76967
1844_CPSF6_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.655873
GSE120612_7_v_5_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
GR-M	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.919022
ARV1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.19934
GSE151090_5_v_1_verteporfin_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE160817_2_v_1_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
LDB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.07172
outer SZ in dorsomedial extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.877642
OVSAHO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.919022
GSE120612_7_v_1_etoposide_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_2358_KD_RPL7_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	5.37369
H3K4me1_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_4316_KO_Ror2_SRP292420	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-11.0537
paraventricular nuclei, right of thalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	2.16867
Perturb_2547_KD_ZFX_SRP115395	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-6.30184
t47d	HPA Cell Line Gene Expression Profiles	-1.0	-0.969415
FD-25-KX07_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.353736
GA-88-CF36_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.205818
PMC11131031-pwad060_suppl_supplementary_tables_s3.xlsx-FOXO1-knockout_bulk_RNA-seq-Differentially_expressed_genes_identified_in_bulk_RNA-seq_of_FOXO1-_-_vs_FOXO1_hMSCs_FOXO1	Rummagene Transcription Factor Associations 2026	1.0	null
GJA5	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.53617
HCC1599	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.66346
EDEM2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.29569
OVKATE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921356
basal ventral medial nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.70413
GSE178560_0_v_1_irf7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
BE-81-QL64_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.206733
CA-48-SW47_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.318766
upper (rostral) rhombic lip_9 pcw_M_12833	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.17303
lateral habenular nucleus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.03241
5205_MRPL21_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.539476
RKO-E6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43895
496100570_HIP_no dementia_no TBI_78_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.43787
inner portion of medial ganglionic eminence	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	2.1884
HCC2218	CCLE Cell Line Gene CNV Profiles	1.0	1.33937
AD-51-SS86_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.305086
GSE178714_5_v_0_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
7164_RBM22_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	-1.0	-0.510216
GSE185519_3_v_7_gilteritinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE112860_0_v_2_prdm16_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE216043_3_v_6_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
INO80E	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.07294
GSE171352_2_v_3_glucagon_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE88819_1_v_8_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_2355_KD_HOXA11_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	10.4446
CTCF	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2607_KD_lncSNHG7_SRP179047	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	13.9585
GSE210870_0_v_1_snai1_human	RummaGEO Gene Perturbation Signatures	1.0	null
NDRG2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.10849
Perturb_2533_KO_HSF1_SRP341615	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.43286
ZBTB2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.23739
supraoptic nucleus, left	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	0.859464
HCC2688	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.875913
Perturb_2554_KD_ZFX/ZNF711_SRP115395	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-2.7432
PMC12571111-qiaf131_supplementary_data.xlsx-ST2-Supplementary_Table_2_Results_of_the_two-sample_MR_analysis_on_the_causal_role_of_CD4_T_cell_expression_profiles_on_CRC_development_NR3C2	Rummagene Transcription Factor Associations 2026	1.0	null
Perturb_2295_KD_FOSL1_SRP139509	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.99012
eukaryotic initiation factor 4E binding	GO Molecular Function Annotations 2023	1.0	null
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-GATA6_GATA6	Rummagene Transcription Factor Associations 2026	1.0	null
GSE140322_0_v_1_imatinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE106661,GSE106665_0_v_3_arid1a_human	RummaGEO Gene Perturbation Signatures	-1.0	null
KU812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01767
TO14	DepMap CRISPR Gene Dependency	1.0	2.48239
CC-91-VE57_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.246671
Perturb_2237_KO_Malat1_SRP193997	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.47224
HAUS8	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.26451
GSE160373_6_v_4_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
BD-49-MD69_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.797078
testis_7b	HPA Tissue Sample Gene Expression Profiles	1.0	1.36582
Perturb_2981_KD_ISG_SRP158414	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.2286
NCI-H510A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.55944
GSE142210_9_v_10_panobinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
3086_FIP1L1_P1P2	Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures	1.0	0.568728
Perturb_2490_Mut_ESR1_SRP254635	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
HCN2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.24261
KURAMOCHI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.870377
hsa-miR-455-3p	TargetScan Predicted Conserved microRNA Targets	1.0	0.670641
IC-05-AW29_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.24344
GF-46-LK68_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.59016
Perturb_1768_KO_Asxl2_SRP124824	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-1.39632
GA-59-RW04_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.215964
AE-42-HT01_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.216378
GSE175787_13_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
SE-15-AV21_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.442752
CHAGO-K-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.02744
GSE169152_3_v_7_ibrutinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-1183	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
GSE213632_4_v_5_acod1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GB-06-BA49_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.595743
AD-55-WK61_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.36744
Perturb_16855_KO_Hnrnph1_SRP068520	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	2.11944
Uterine corpus cancer	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	1.0	1.016
KCL-22	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	1.825
Perturb_4922_KD_WTAP_ERP019668	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-3.92969
Perturb_3610_KO_BCL7B_SRP127343	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	15.4302
NC-27-AD53_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.392357
GSE218060_7_v_0_decitabine_human	RummaGEO Drug Perturbation Signatures	-1.0	null
primary somatosensory cortex (area S1, areas 3,1,2)_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.00504
AB-25-XU75_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.337428
skeletalmuscle_b	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.20644
CA-73-BW50_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.253134
lateral dorsal nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-0.845939
MCF7	CCLE Cell Line Gene CNV Profiles	1.0	1.8585
GE-47-OO30_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.220598
GSE128730_4_v_6_neratinib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
H3K4me1_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
amygdaloid complex_40 yrs_F_12304	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.69499
2793_EXOSC6_P1P2	Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures	1.0	1.5292
GSE112860_5_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
786-O	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.35027
GSE174498,GSE174500_3_v_7_asparaginase_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE165916_1_v_2_n4bp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_2667_KD_RBM39_SRP357624	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
496100382_PCx_no dementia_TBI_78_M	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	-1.0	-2.30841
M059K	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.968295
GSE124932_2_v_1_sarm1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
paracentral lobule, posterior part, left, lateral bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.51332
GSE112860_3_v_6_prdm16_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
YD15	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32664
SRRM3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.16484
DF-11-IL69_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.244474
Perturb_8479_KD_CSDE1_SRP117243	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-7.4306
hsa-miR-885-5p	TargetScan Predicted Conserved microRNA Targets	1.0	0.274552
SNU626	CCLE Cell Line Gene CNV Profiles	-1.0	-1.58294
BD-96-HO33_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.212307
NCI-H2073	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08181
EE-03-SG02_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.277404
GSE95077_5_v_4_amiloride_human	RummaGEO Drug Perturbation Signatures	1.0	null
H3K4me3_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2363_KD_ZNF589_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	6.98442
GSE129241_3_v_6_valproic acid_human	RummaGEO Drug Perturbation Signatures	1.0	null
Perturb_6624_KD_DDX5_SRP237546	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-10.8702
oculomotor nuclear complex, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.14228
OPM2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.55999
DA-80-IY83_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.312766
hsa-miR-4263	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
GSE237053_1_v_0_comt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE135030_8_v_7_fludarabine_human	RummaGEO Drug Perturbation Signatures	1.0	null
salivarygland_6c	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.13311
CDK2	Kinase Library Serine Threonine Kinome Atlas	1.0	null
JF-45-JM50_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.224554
Perturb_7136_KD_SETD8_DRP009168	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-4.34683
GSE160817_4_v_9_slamf6_human	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE182680,GSE182683_0_v_8_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE200352_4_v_8_pparg_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
ACTA1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.00509
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MEF2A_MEF2A	Rummagene Transcription Factor Associations 2026	1.0	null
GSE158834_7_v_4_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
POLR2A_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_liver_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
HC-92-HE59_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.221269
SREBF2	ChEA Transcription Factor Targets	1.0	null
GSE213632_4_v_6_acod1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
hsa-miR-582-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.2992
HCC1954	CCLE Cell Line Gene CNV Profiles	1.0	2.1204
PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MYCN_MYCN	Rummagene Transcription Factor Associations 2026	1.0	null
occipito-temporal gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.36237
hsa-miR-924	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.965816
NCIH660	CCLE Cell Line Gene CNV Profiles	1.0	1.52413
PMC4387713-supp_gad.255984.114_Table_S5.xlsx-S5F-Up_H3K27me3_DPY30_KD-Unnamed_12_AR	Rummagene Transcription Factor Associations 2026	1.0	null
EA-39-YN88_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.30447
cerebellar cortex_8 yrs_M_12981	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.73348
H3K4me3_liver_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
UC-00-QA88_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.25979
anteroventral nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.6009
GSE146982_4_v_2_gpd1_human	RummaGEO Gene Perturbation Signatures	1.0	null
GSE216043_7_v_5_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
hsa-miR-4789-5p	TargetScan Predicted Nonconserved microRNA Targets	1.0	0.880544
Perturb_11172_KO_Klf15_SRP186285	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.15662
PSMA3	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.1513
MOR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01656
hsa-miR-33b	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.20993
BE-03-XC62_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.316212
superior occipital gyrus, right, inferior bank of gyrus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.41995
GSE216273,GSE216292_0_v_3_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PROSER2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.35845
H3K4me3_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2683_KD_SNHG7_SRP179498	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	20.0
Perturb_15850_KO_Etv5_SRP165224	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	1.0	7.63976
parafascicular nucleus of thalamus	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	-1.0	-1.01168
GSE215086_1_v_6_batf_human	RummaGEO Gene Perturbation Signatures	-1.0	null
ND-15-RC31_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-1.05177
AE-19-BK71_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.428831
496100651_FWM_probable Alzheimer's disease_TBI_83_F	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	1.0	2.02025
Perturb_2491_Mut_ESR1_SRP254635	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	-1.0	-20.0
hsa-miR-219-2-3p	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.55165
cerebellar cortex_4 mos_M_12890	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-2.08906
primary auditory cortex (core)_36 yrs_M_12302	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	1.07352
MOLM13	CCLE Cell Line Gene CNV Profiles	1.0	1.36605
LC-12-VN85_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.357142
PSN1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.982637
colonrectum_d	HPA Tissue Sample Gene Expression Profiles	-1.0	-0.90425
GSE142210_4_v_5_panobinostat_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE114284_4_v_3_irf1_human	RummaGEO Gene Perturbation Signatures	1.0	null
PMC7941712-40478_2021_1135_MOESM12_ESM.xlsx-Table_S4D_DEG_ST-EPN-RELA-Unnamed_6_RELA	Rummagene Transcription Factor Associations 2026	1.0	null
GSE216273,GSE216292_14_v_6_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
PMC4082627-12864_2014_6197_MOESM8_ESM.xlsx-GATA3_only-Nearest_Ensembl_GATA3	Rummagene Transcription Factor Associations 2026	1.0	null
GSE150032,GSE181873_3_v_1_ezh2_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
X, left, paravermis	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.47191
GSE195568_3_v_0_palbociclib_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE107505_3_v_2_nanog_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
GSE116810_5_v_4_selinexor_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE207914_2_v_7_nudt7_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE182680,GSE182683_7_v_4_dexamethasone_human	RummaGEO Drug Perturbation Signatures	-1.0	null
CAS1	DepMap CRISPR Gene Dependency	1.0	4.40712
GSE202434,GSE202438_4_v_0_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
GSE233647_4_v_6_docetaxel_human	RummaGEO Drug Perturbation Signatures	1.0	null
posterior (caudal) superior temporal cortex (area 22c)_4 yrs_M_12298	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	1.0	0.903527
GC-04-UF36_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.276087
GSE112761,GSE112767_2_v_0_ddx6_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE202434,GSE202438_6_v_1_talazoparib_human	RummaGEO Drug Perturbation Signatures	1.0	null
ZNF470	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.68043
GSE151612_0_v_7_pracinostat_human	RummaGEO Drug Perturbation Signatures	1.0	null
BICR 78	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02464
HT3	DepMap CRISPR Gene Dependency	1.0	5.9094
skeletalmuscle_d	HPA Tissue Sample Gene Expression Profiles	-1.0	-1.85091
EE-98-PF86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.219138
PMC9843270-mmc2.xlsx-DEGs_of_three_subtypes-The_DEGs_of_TP53_type_TP53	Rummagene Transcription Factor Associations 2026	1.0	null
GSE88819_1_v_4_tug1_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
paracentral lobule, posterior part, left, bank of cingulate sulcus	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.36279
Perturb_11232_KO_Il4/Il10_SRP100781	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-6.66713
GSE248659_1_v_0_klf5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
Perturb_10928_OE_Mafg_SRP165896	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-3.03475
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.876604
paraventricular nucleus of the hypothalamus, right	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	1.0	1.07414
cerebellar cortex_4 mos_M_12296	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.4952
GSE95688_7_v_5_glutathione_mouse	RummaGEO Drug Perturbation Signatures	-1.0	null
CF-50-QK79_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.363581
PMC10794847-mmc2.xlsx-PBRM1_KD_down-Table_S1_Differentially_expressed_genes_with_PBRM1_knockdown_in_the_progenitor_state_Related_to_Figure_1_AR	Rummagene Transcription Factor Associations 2026	1.0	null
FCF1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.03469
orbital frontal cortex_13 pcw_F_12834	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.914113
inner SZ in lateral temporal-occipital cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.924889
TIGD4	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.14298
OPM1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.4516
ISTMES2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.72639
NTERA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.84763
VZ in orbital frontal cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.33726
INCENP	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.34214
LGE-VZ border region	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	0.838107
BA-90-AA10_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.23673
GSE221327_5_v_0_clpp_human	RummaGEO Gene Perturbation Signatures	-1.0	null
hippocampus (hippocampal formation)_37 pcw_M_263195015	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.01179
hsa-miR-640	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.07142
H3K4me3_erythroblast_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
NC-27-AD53_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.69598
H3K4me1_megakaryocyte_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
inferolateral temporal cortex (area TEv, area 20)_13 pcw_M_12820	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-0.893293
GSE158834_7_v_6_palmitic acid_human	RummaGEO Drug Perturbation Signatures	-1.0	null
inner SZ in dorsomedial extrastriate cortex	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.05518
GSE227415_1_v_0_ucp1_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
GSE178714_6_v_2_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
skeletal muscle	HPA Tissue Gene Expression Profiles	-1.0	-1.53233
GSE113734_1_v_0_qprt_human	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_limb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
IA-27-CK10_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.224501
VZ in caudal midinferior temporal cortex (area TF)	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	1.0	1.35181
RRP15	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	3.32051
GFUS	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.12449
GSE180185_7_v_1_setbp1_human	RummaGEO Gene Perturbation Signatures	-1.0	null
UBTFL1	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-3.1675
CC-61-HH09_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	1.0	0.362126
BD-96-HO33_0.01uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.557306
Perturb_14921_Mut_Atxn3_SRP155020	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-4.55543
GSE147056_2_v_1_actl6b_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
H3K4me3_olfactory bulb_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
CD83	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.46438
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
GSE169205_3_v_6_sirt5_human	RummaGEO Gene Perturbation Signatures	-1.0	null
HE-80-BQ08_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.496055
cerebellar cortex_3 yrs_M_12980	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	-1.0	-1.90668
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.958956
HA-53-FL63_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.332775
AU565	CCLE Cell Line Gene CNV Profiles	1.0	2.36382
BC-1	Sanger Dependency Map Cancer Cell Line Proteomics	1.0	2.02383
COLO320	DepMap CRISPR Gene Dependency	1.0	4.42316
NCI-H322T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.38194
GSE122509,GSE122513_3_v_0_ibrutinib_human	RummaGEO Drug Perturbation Signatures	1.0	null
DA-20-VR86_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.212465
GSE175787_4_v_10_rhoc_human	RummaGEO Gene Perturbation Signatures	1.0	null
KP4	CCLE Cell Line Gene CNV Profiles	-1.0	-1.47753
COV318	CCLE Cell Line Gene CNV Profiles	-1.0	-1.90059
Perturb_2297_KD_MUC1_SRP214243	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	4.69338
OF-05-CB18_1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.33068
GSE149123,GSE149128_2_v_0_cdk7_mouse	RummaGEO Gene Perturbation Signatures	-1.0	null
PMC10319804-41467_2023_38747_MOESM9_ESM.xlsx-KHSRP_KD_genes_down-gene_name_AR	Rummagene Transcription Factor Associations 2026	1.0	null
OC-71-BZ81_10uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.236941
GSE178714_1_v_4_smad2_human	RummaGEO Gene Perturbation Signatures	-1.0	null
NCI-H1437	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43924
AF-73-HJ84_0.1uM	NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles	-1.0	-0.209013
RPRD2	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	-1.0	-2.01495
Tobacco Use Disorder	HuGE Navigator Gene-Phenotype Associations	1.0	null
H3K4me1_bone marrow macrophage_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
Perturb_2354_KD_FOXQ1_SRP072302	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	12.7753
Perturb_2466_KD_NDP52_SRP345458	PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	1.6545
Perturb_4474_OE_Smn_SRP258674	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-2.27378
VI, right, lateral hemisphere	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	-1.0	-1.17172
9424_TUBG1_P1P2	Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures	1.0	0.848392
SEPTIN11	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	1.0	2.24435
GSE235066_7_v_3_cisplatin_human	RummaGEO Drug Perturbation Signatures	-1.0	null
GSE158197_2_v_11_egfr_mouse	RummaGEO Gene Perturbation Signatures	1.0	null
Perturb_15116_KD_Rtn4_SRP278924	PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations	-1.0	-20.0
hsa-miR-4306	TargetScan Predicted Nonconserved microRNA Targets	1.0	1.40969
GSE202434,GSE202438_15_v_5_talazoparib_human	RummaGEO Drug Perturbation Signatures	-1.0	null