association dataset threshold value standardized value GSE179036_1_v_0_trim24_mouse RummaGEO Gene Perturbation Signatures 1.0 null JMJD6 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.20828 GSE154767_1_v_0_adam10_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE214823,GSE214824_0_v_1_crtc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null STAT1::STAT2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 45.5742 GSE244072_4_v_6_tfeb_mouse RummaGEO Gene Perturbation Signatures 1.0 null MGA JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.9618 SP3_Deficiency_GDS3058_610_mouse_Embryonic heart (day 12.5 C57Bl/6) GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null EM2 CCLE Cell Line Gene CNV Profiles 1.0 1.88703 TBX20 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 36.689 496100434_HIP_no dementia_TBI_95-99_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.19346 GSE220520_3_v_9_ethanol_mouse RummaGEO Drug Perturbation Signatures 1.0 null GSE100316_3_v_2_mtor_mouse RummaGEO Gene Perturbation Signatures 1.0 null TBX21 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.613 BLTP1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.17486 ECHDC1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.28919 SLC12A9 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.6073 NCI-H209 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.1943 GSE136627_2_v_1_hdac4_mouse RummaGEO Gene Perturbation Signatures 1.0 null NCIH1793 CCLE Cell Line Gene CNV Profiles -1.0 -1.71516 IALM CCLE Cell Line Gene CNV Profiles 1.0 1.4419 GSE159678_6_v_3_chloroquine_human RummaGEO Drug Perturbation Signatures -1.0 null MAP4K2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.40374 GSE154074_2_v_4_bleomycin_mouse RummaGEO Drug Perturbation Signatures -1.0 null GSE160246_2_v_1_cpeb4_mouse RummaGEO Gene Perturbation Signatures 1.0 null NTERA-2 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.874998 496100597_HIP_dementia_TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.91232 PMC8117616-12864_2021_7643_MOESM7_ESM.xlsx-1_CHA_GWAS_SNP_results-Gene_symbol_TCFL5 Rummagene Transcription Factor Associations 2026 1.0 null ARL6IP4 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.53387 OVSAHO CCLE Cell Line Gene CNV Profiles 1.0 2.9077 GSE179974_3_v_1_carboplatin_mouse RummaGEO Drug Perturbation Signatures 1.0 null HOXD9 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.2433 NCI-H2172 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.92089 FOXO1::FLI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 56.4608 hsa-miR-1909 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 PHF12 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.19943 HCC1319 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.933865 TBX5 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.4769 GSE127790_11_v_2_zcchc8_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE229580_2_v_1_creb1_human RummaGEO Gene Perturbation Signatures -1.0 null PMC12019518-ao5c02459_si_002.xlsx-Table_S3-Table_S3_Screening_of_genes_that_are_commonly_upregulated_in_cells_on_stiff_substrate_and_down-regulated_by_KD_of_UBE2A_B_AR Rummagene Transcription Factor Associations 2026 1.0 null GSE111102,GSE111105_1_v_5_pparg_mouse RummaGEO Gene Perturbation Signatures 1.0 null CHST7 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.98877 COL1A2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.97412 HUG1N CCLE Cell Line Gene CNV Profiles 1.0 2.55428 REXO5 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.70702 ZNF253 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.75306 STAT4 MotifMap Predicted Transcription Factor Targets 1.0 null FOXO1::ELF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 59.7199 IKZF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 36.4266 NCIH2172 CCLE Cell Line Gene CNV Profiles 1.0 2.22047 Perturb_16526_KO_Ahrr_SRP318414 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -1.66395 NKX2-5 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.5042 HT1197 CCLE Cell Line Gene CNV Profiles -1.0 -1.51512 ZNF652 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.0044 PMC7468443-Data_Sheet_5.xlsx-LPS_2h_over_6h-Unnamed_7_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null PMC9181267-mmc3.xls-FILTERED_OLD-INFvsYOUNG-INF_LUN-GSEA_name_TOPORS Rummagene Transcription Factor Associations 2026 1.0 null NCIH2286 CCLE Cell Line Gene CNV Profiles -1.0 -1.72198 Perturb_7958_KD_ZCCHC8/ZFC3H1_SRP222099 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 8.72843 BCL3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.49914 GSE127790_9_v_2_zcchc8_mouse RummaGEO Gene Perturbation Signatures 1.0 null hsa-miR-3138 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.0155 GSE159678_6_v_7_chloroquine_human RummaGEO Drug Perturbation Signatures -1.0 null GSE245134_2_v_3_atg5_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE127790_13_v_2_zcchc8_mouse RummaGEO Gene Perturbation Signatures 1.0 null NCO2 CCLE Cell Line Gene CNV Profiles 1.0 1.54148 mRNA_ETV3_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null TGIF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 25.7071 GSE100316_3_v_1_mtor_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE143212_1_v_2_bleomycin_mouse RummaGEO Drug Perturbation Signatures 1.0 null 496100671_HIP_no dementia_TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.14785 Bhlha15 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 24.3148 496100480_HIP_no dementia_TBI_88_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.35047 GTF2A1L CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.25113 NFATC4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 30.6953 GSE166169_0_v_3_elp3_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE197630_1_v_0_ruvbl1_human RummaGEO Gene Perturbation Signatures 1.0 null GSE212330_1_v_0_azacitidine_human RummaGEO Drug Perturbation Signatures 1.0 null GSE232223_1_v_0_letmd1_mouse RummaGEO Gene Perturbation Signatures 1.0 null HMY-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.24349 GR-M Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.99114 HCC38 CCLE Cell Line Gene CNV Profiles -1.0 -1.35344 APP_KO_GDS4414_370_mouse_prefrontal cortex GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null GSE130217_5_v_3_sesn2_mouse RummaGEO Gene Perturbation Signatures 1.0 null hsa-miR-1182 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.965816 SLU7 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.10788 HCC1599 CCLE Cell Line Gene CNV Profiles 1.0 1.37017 SF172 CCLE Cell Line Gene CNV Profiles 1.0 1.60591 LBP-1 MotifMap Predicted Transcription Factor Targets 1.0 null EPB41L2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.97883 PBX3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 35.8154 Perturb_7957_KD_ZCCHC8_SRP222099 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 5.79241 Ovary GTEx Tissue Gene Expression Profiles 2023 1.0 5.36566 NCI-H510A Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.34977 Alveolar cell type II TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.098 COLO741 CCLE Cell Line Gene CNV Profiles 1.0 1.33758 Ankyrin repeat InterPro Predicted Protein Domain Annotations 1.0 null NCIH716 DepMap CRISPR Gene Dependency 1.0 2.68023 GSE149096_4_v_0_ascl1_human RummaGEO Gene Perturbation Signatures 1.0 null COLO320 DepMap CRISPR Gene Dependency 1.0 3.53085 MDA-MB-415 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.901111 CREB1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.94741 GSE124410_2_v_4_stk40_mouse RummaGEO Gene Perturbation Signatures 1.0 null Interferon regulatory factor 7 complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.598 ETV1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 44.2603 NDUFA1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.01001 VMRC-LCD Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.827219 UMUC7 DepMap CRISPR Gene Dependency 1.0 2.66035 GSE223008_5_v_12_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null MDAMB231 CCLE Cell Line Gene CNV Profiles 1.0 1.47223 H3K4me1_megakaryocyte_mm9_3 ENCODE Histone Modification Site Profiles 1.0 null NCI-H727 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.890553 GSE234289_3_v_2_rfx6_human RummaGEO Gene Perturbation Signatures 1.0 null GSE157960_0_v_1_progesterone_mouse RummaGEO Drug Perturbation Signatures -1.0 null H3K9me3_G1E-ER4_mm9_2 ENCODE Histone Modification Site Profiles 1.0 null HCC1599 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.70069 COG1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.95034 GSE114992,GSE114993_7_v_11_irf5_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE140576_0_v_2_plag1_mouse RummaGEO Gene Perturbation Signatures -1.0 null THP-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.1943 ZNF2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.89731 GSE178255_1_v_7_tlr4_mouse RummaGEO Gene Perturbation Signatures 1.0 null IRF7 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.5417 hsa-miR-502-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 GSE148066,GSE157787_9_v_4_n4bp1_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE131161_5_v_4_rarres1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE100316_7_v_6_mtor_mouse RummaGEO Gene Perturbation Signatures -1.0 null HCC364 CCLE Cell Line Gene CNV Profiles -1.0 -2.03813 GSE173873_1_v_3_stra8_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE231648_1_v_3_lsm14b_mouse RummaGEO Gene Perturbation Signatures -1.0 null OE19 CCLE Cell Line Gene CNV Profiles 1.0 1.8466 KURAMOCHI Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.71405 GSE108614,GSE108615_3_v_2_setd1a_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE218580_1_v_0_fentanyl_mouse RummaGEO Drug Perturbation Signatures -1.0 null GATA6 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.1121 PMC9181267-mmc3.xls-FILTERED_OLD-INFvsYOUNG-INF_LUN-orthofinder_human_gene_names_TOPORS Rummagene Transcription Factor Associations 2026 1.0 null 647V CCLE Cell Line Gene CNV Profiles 1.0 1.43042 ZNF324 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 25.0577 496100294_HIP_possible Alzheimer's disease_TBI_90-94_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.2281 Artery - Aorta GTEx Tissue Gene Expression Profiles 2023 1.0 3.06879 HCC1569 CCLE Cell Line Gene CNV Profiles 1.0 2.02042 GSE100316_0_v_2_mtor_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE247764_1_v_2_nell2_mouse RummaGEO Gene Perturbation Signatures 1.0 null PMC12549544-mmc2.xlsx-AA_D1_VS_D7-Name_TEAD1 Rummagene Transcription Factor Associations 2026 1.0 null OCI-LY-19 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.1943 GSE184902_4_v_0_adipor1_mouse RummaGEO Gene Perturbation Signatures -1.0 null MESP2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.13206 hsa-miR-4717-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.809003 GSE126127_2_v_1_prmt1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE211989_0_v_1_nlrc3_mouse RummaGEO Gene Perturbation Signatures 1.0 null H3K4me1_megakaryocyte_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null GSE111102,GSE111105_1_v_0_pparg_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE176008_4_v_1_azacitidine_human RummaGEO Drug Perturbation Signatures 1.0 null MAFA MotifMap Predicted Transcription Factor Targets 1.0 null TFAP4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.5748 mRNA_SMAD7_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null Ptf1a JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 59.7072 HCC2885 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.55528 TGIF2LX JASPAR Predicted Human Transcription Factor Targets 2025 1.0 22.0572 ZNF175 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 44.1606 NCIH1573 CCLE Cell Line Gene CNV Profiles -1.0 -1.5187 A-431 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.45989 Perturb_15286_KO_Trp73_SRP067006 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -7.43461 GSE168807_0_v_7_dnmt3a_mouse RummaGEO Gene Perturbation Signatures 1.0 null MSANTD3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.7346 GSE166169_2_v_3_elp3_mouse RummaGEO Gene Perturbation Signatures -1.0 null CALU-6 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.832577 ERF::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 42.1752 ZNF566 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.4686 SCLC-22H Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.870767 496100656_HIP_no dementia_no TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.47903 GATA2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.2283 ZNF211 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.3224 hsa-miR-628-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.921135 NCI-H2110 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.833483 A549 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 irf8_00000000_splenic_cd11bplusgrdash1_hdash2b_gen_background_lof_mouse_gpl6887_gse39228 GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations -1.0 -0.753925 GSE217115_2_v_0_alectinib_mouse RummaGEO Drug Perturbation Signatures -1.0 null KYSE-520 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.932928 WERIRB1 DepMap CRISPR Gene Dependency 1.0 4.95842 EVSA-T Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.15139 Perturb_10637_KO_Sip1_SRP028877 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -20.0 ME-180 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.874998 MRPS26 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.98974 PMC11743796-41420_2025_2295_MOESM5_ESM.xlsx-aged_LPS_BV-2_vs_human_upreg-mouse_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null GSE114992,GSE114993_9_v_6_irf5_mouse RummaGEO Gene Perturbation Signatures 1.0 null H3K9me3_CH12.LX_mm9_2 ENCODE Histone Modification Site Profiles 1.0 null HEP G2 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.950597 GSE234289_4_v_2_rfx6_human RummaGEO Gene Perturbation Signatures 1.0 null MDN1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.44617 OVCA 429 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.832577 IRF2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 82.1667 MEIS1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 33.6642 Ankyrin repeat-containing domain InterPro Predicted Protein Domain Annotations 1.0 null NCAPG2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.99011 GSE152432_3_v_2_zrsr2_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE223008_9_v_2_calhm6_mouse RummaGEO Gene Perturbation Signatures -1.0 null 496100586_HIP_no dementia_no TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.18606 GSE247775_1_v_0_tmprss2_mouse RummaGEO Gene Perturbation Signatures -1.0 null H2AC21 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.00805 fallopian tube HPA Tissue Gene Expression Profiles 1.0 2.24804 GSE114992,GSE114993_7_v_10_irf5_mouse RummaGEO Gene Perturbation Signatures -1.0 null MED28 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.69324 lung GTEx Tissue Gene Expression Profiles 1.0 0.912697 GSE149264,GSE149267_2_v_1_trp53_mouse RummaGEO Gene Perturbation Signatures -1.0 null 496100355_HIP_no dementia_no TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 5.25718 ETV5::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 35.7536 PKNOX1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 27.0006 EFM-19 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.47304 NCI-H820 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.962524 GSE184902_4_v_0_adiponectin_mouse RummaGEO Drug Perturbation Signatures -1.0 null GSE164521_0_v_1_nitric oxide_mouse RummaGEO Drug Perturbation Signatures -1.0 null MATK CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.77796 PMC7064149-CAM4-9-2062-s004.xlsx-Table_S5-Table_S5_DEGs_between_low-_and_high-FOXP4-AS1_expression_groups_in_PDAC_tumor_tissues_FOXP4 Rummagene Transcription Factor Associations 2026 1.0 null 496100539_HIP_probable Alzheimer's disease_TBI_78_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.92194 496100465_HIP_possible Alzheimer's disease_TBI_100+_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.34632 DMS114 CCLE Cell Line Gene CNV Profiles 1.0 1.34404 Dandy-Walker syndrome DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.422 CAOV3 CCLE Cell Line Gene CNV Profiles 1.0 1.90614 GSE100316_7_v_4_mtor_mouse RummaGEO Gene Perturbation Signatures -1.0 null NEUROD1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.0929 GSE231648_1_v_5_lsm14b_mouse RummaGEO Gene Perturbation Signatures -1.0 null NCIH209 CCLE Cell Line Gene CNV Profiles 1.0 1.34404 SU-DHL-6 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.53109 GSE89636_2_v_0_glucagon_mouse RummaGEO Drug Perturbation Signatures 1.0 null NCIH1435 CCLE Cell Line Gene CNV Profiles 1.0 1.5382 GSE244072_12_v_1_tfeb_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE130217_0_v_3_sesn2_mouse RummaGEO Gene Perturbation Signatures 1.0 null PK1 CCLE Cell Line Gene CNV Profiles -1.0 -1.55204 CDX2 ChEA Transcription Factor Targets 1.0 null ZNF485 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.86183 CAL29 DepMap CRISPR Gene Dependency 1.0 7.17513 U937 CCLE Cell Line Gene CNV Profiles 1.0 2.30801 ERF::FOXO1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 49.8185 RBM4B CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.79558 t69-brown-adipose_male_1w MoTrPAC Rat Endurance Exercise Training -1.0 -3.26754 Neuro D MotifMap Predicted Transcription Factor Targets 1.0 null Perturb_14788_OE_Slit2_SRP267596 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 8.32844 GSE101336_1_v_3_decitabine_mouse RummaGEO Drug Perturbation Signatures -1.0 null COV318 DepMap CRISPR Gene Dependency 1.0 3.82427 COLO 206F Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.65201 PCYOX1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 4.37162 ZC3HAV1L CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.3532 HCC1937 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.03118 MFM-223 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.45635 PKNOX2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 25.4579 CL11 CCLE Cell Line Gene CNV Profiles -1.0 -2.46499 KU812 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.95487 GSE124410_6_v_4_stk40_mouse RummaGEO Gene Perturbation Signatures 1.0 null HPAC Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04712 A-498 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.51877 HCC1569 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.18162 496100538_HIP_no dementia_no TBI_87_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.67032 IRF9 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 36.3393 RBPJ JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.6724 RAGE_knockout_267_GDS3755 GEO Signatures of Differentially Expressed Genes for Kinase Perturbations 1.0 1.40134 CEBPA JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.2608 GSE124410_6_v_0_stk40_mouse RummaGEO Gene Perturbation Signatures 1.0 null YY1 MotifMap Predicted Transcription Factor Targets 1.0 null GSE112202_5_v_2_digoxin_human RummaGEO Drug Perturbation Signatures -1.0 null GSE225647_0_v_3_srsf1_mouse RummaGEO Gene Perturbation Signatures 1.0 null FLI1::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 47.4679 COLO-783 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 USH1G CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.34581 GSE124410_2_v_0_stk40_mouse RummaGEO Gene Perturbation Signatures 1.0 null SK-BR-3 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.18556 M059K DepMap CRISPR Gene Dependency 1.0 3.04263 GSE183251_1_v_0_cyp2c70_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE223008_7_v_1_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null SNU-668 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.832577 mRNA_KLF4_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null SNX16 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.49139 GSE111102,GSE111105_4_v_0_pparg_mouse RummaGEO Gene Perturbation Signatures 1.0 null Vesicle lumen COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.715 FOXJ2::ELF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 53.6235 GSE131798,GSE131804_5_v_0_igf1_mouse RummaGEO Gene Perturbation Signatures 1.0 null HCC2270 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.932928 H3K4me1_heart_mm9_2 ENCODE Histone Modification Site Profiles 1.0 null A498 CCLE Cell Line Gene CNV Profiles -1.0 -1.50638 SLAIN1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.58844 JHUEM3 CCLE Cell Line Gene CNV Profiles 1.0 1.90373 CENPT CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.17561 PABPC1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.21547 GSE181821_1_v_3_mov10_mouse RummaGEO Gene Perturbation Signatures 1.0 null 496100545_HIP_possible Alzheimer's disease_no TBI_95-99_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.14188 mRNA_ATF3_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null A-375 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.99114 C1orf21 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.66507 SPIB JASPAR Predicted Human Transcription Factor Targets 2025 1.0 52.5665 PTEN_KD_GDS4759_337_mouse_E16 primary cortical neuron cultures GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null HCC827 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.99114 MDA-MB-436 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.55528 AHCY CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.97664 HUT78 CCLE Cell Line Gene CNV Profiles 1.0 1.49759 GSE231648_4_v_3_lsm14b_mouse RummaGEO Gene Perturbation Signatures -1.0 null PARP11 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.03587 GSE160246_9_v_5_cpeb4_mouse RummaGEO Gene Perturbation Signatures -1.0 null RERF-LC-OK Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.04274 SNU-475 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.962524 Olig2 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 17.8375 NCI-H1573 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.24951 GSE214823,GSE214824_3_v_1_crtc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null SKLU1 CCLE Cell Line Gene CNV Profiles 1.0 1.43313 H3K4me1_small intestine_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null U-937 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.83113 ZNF135 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 58.3608 COLO792 CCLE Cell Line Gene CNV Profiles -1.0 -2.01083 GSE148066,GSE157787_8_v_6_n4bp1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE154074_2_v_0_bleomycin_mouse RummaGEO Drug Perturbation Signatures -1.0 null GSE223008_5_v_1_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null Arid5a JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 16.5428 Perturb_6588_KO_Cabin1_SRP252595 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 14.9182 ML1 CCLE Cell Line Gene CNV Profiles -1.0 -1.45734 496100372_HIP_dementia_no TBI_84_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.29604 COLO 205 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.47475 GSE71468,GSE76476_0_v_1_rbfox1_human RummaGEO Gene Perturbation Signatures 1.0 null GSE100316_5_v_6_mtor_mouse RummaGEO Gene Perturbation Signatures -1.0 null MSC JASPAR Predicted Human Transcription Factor Targets 2025 1.0 21.943 GSE152432_6_v_2_zrsr2_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE152432_1_v_2_zrsr2_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE114992,GSE114993_1_v_6_irf5_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE202284,GSE202289_3_v_4_bmal1_mouse RummaGEO Gene Perturbation Signatures -1.0 null NCI-H2170 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.99114 Scape TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.728 UCSD-242L Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.838625 PTER CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.77138 PDCD2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.30067 GSE223008_5_v_3_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE179974_3_v_2_carboplatin_mouse RummaGEO Drug Perturbation Signatures 1.0 null RFX1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.4315 ERF::HOXB13 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 27.51 PMC7468443-Data_Sheet_2.xlsx-DEG_6h_LPS-Unnamed_7_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null GSE127790_5_v_2_zcchc8_mouse RummaGEO Gene Perturbation Signatures 1.0 null KMRC1 DepMap CRISPR Gene Dependency 1.0 6.45254 GSE154074_5_v_0_bleomycin_mouse RummaGEO Drug Perturbation Signatures -1.0 null GSE223008_9_v_12_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE231799_3_v_1_nfkbie_mouse RummaGEO Gene Perturbation Signatures 1.0 null COLO205 CCLE Cell Line Gene CNV Profiles -1.0 -1.48187 HCC4006 CCLE Cell Line Gene CNV Profiles -1.0 -1.60705 Twist2 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 17.8894 PSN1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.07475 496100453_HIP_possible Alzheimer's disease_no TBI_88_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.48194 HCC2814 CCLE Cell Line Gene CNV Profiles -1.0 -1.41661 mRNA_MEF2C_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null GSE100316_5_v_4_mtor_mouse RummaGEO Gene Perturbation Signatures -1.0 null KYSE-150 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.43025 NR3C2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.6745 TRPS1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 18.9252 SUDHL8 CCLE Cell Line Gene CNV Profiles 1.0 1.67912 SIX1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 18.2762 TBX3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 33.114 PMC9181267-mmc3.xls-FILTERED_OLD-INFvsYOUNG-INF_LUN-hsapiens_homolog_associated_gene_name_TOPORS Rummagene Transcription Factor Associations 2026 1.0 null SCLC-21H Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.03218 TEKTIP1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.02369 HCC2935 CCLE Cell Line Gene CNV Profiles 1.0 1.33006 COLO 201 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.22844 CAMA-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.15326 DBTRG05MG DepMap CRISPR Gene Dependency 1.0 2.69906 t69-brown-adipose_male_2w MoTrPAC Rat Endurance Exercise Training -1.0 -9.3174 TBX18 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 25.776 POU4F2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.62541 ZNF184 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 50.1046 t69-brown-adipose_male_4w MoTrPAC Rat Endurance Exercise Training -1.0 -8.17613 KP-3 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 MYF6 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.9575 WT1-25993318-PODOCYTE-HUMAN ChEA Transcription Factor Targets 2022 1.0 null Nrf2_deficiency_GDS3406_156_mouse_liver GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null GSE223008_6_v_1_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE189683_3_v_0_rif1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE217115_2_v_5_alectinib_mouse RummaGEO Drug Perturbation Signatures -1.0 null K-562 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.838625 PAX6 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 15.3721 hsa-miR-2355-3p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 hsa-miR-4698 TargetScan Predicted Conserved microRNA Targets 1.0 0.389112 H3K4me1_bone marrow_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null HOXD12::ELK1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.2019 MEIS2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 29.7857 GSE127790_10_v_2_zcchc8_mouse RummaGEO Gene Perturbation Signatures 1.0 null Tcf21 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 22.6045 mRNA_CDX2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null SK-MES-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04712 GSE162739_7_v_1_bap1_mouse RummaGEO Gene Perturbation Signatures -1.0 null fallopian tube GTEx Tissue Gene Expression Profiles 1.0 1.09119 mRNA_GADD45A_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null GSE98964_0_v_2_tet2_mouse RummaGEO Gene Perturbation Signatures 1.0 null hsa-miR-657 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.965816 NCI-H2172 COSMIC Cell Line Gene CNV Profiles 1.0 3.12177 GSE158502,GSE158506_3_v_0_fat1_mouse RummaGEO Gene Perturbation Signatures -1.0 null AKT1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.86097 MEC2 CCLE Cell Line Gene CNV Profiles -1.0 -1.45792 GSE210580_0_v_2_rag2_mouse RummaGEO Gene Perturbation Signatures 1.0 null 496100515_HIP_dementia_TBI_90-94_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.8521 HDMYZ DepMap CRISPR Gene Dependency 1.0 2.29392 GSE179974_3_v_4_carboplatin_mouse RummaGEO Drug Perturbation Signatures 1.0 null d17 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.716 UHRF1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.28941 dh82 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.064 CFP CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.69619 GSE217694_3_v_2_pold1_mouse RummaGEO Gene Perturbation Signatures -1.0 null MDA-MB-231 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.34977 VCAP CCLE Cell Line Gene CNV Profiles -1.0 -1.76645 GSE154074_1_v_0_bleomycin_mouse RummaGEO Drug Perturbation Signatures -1.0 null 496100349_HIP_no dementia_no TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.92928 mRNA_NR5A2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null Perturb_14235_KO_Tet1_SRP237910 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 7.98874 GSE149264,GSE149267_4_v_3_trp53_mouse RummaGEO Gene Perturbation Signatures 1.0 null UNK CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.3797 POLR2L CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.28638 GSE180185_7_v_5_setbp1_human RummaGEO Gene Perturbation Signatures -1.0 null SPIC JASPAR Predicted Human Transcription Factor Targets 2025 1.0 68.4877 CDX2-19796622-MESC-mouse ChEA Transcription Factor Binding Site Profiles 1.0 null NCI-H1793 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.56535 RAB29 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.51244 HCC38 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.47475 PMC9181267-mmc3.xls-FILTERED_OLD-INFvsYOUNG-INF_LUN-hsapiens_homolog_ensembl_gene_TOPORS Rummagene Transcription Factor Associations 2026 1.0 null 496100529_HIP_no dementia_no TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.6425 496100392_HIP_dementia_TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.29824 COR-L26 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.903298 PCDHB7 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.78783 H3K9me3_CH12.LX_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null PANC 03.27 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.838625 GATA4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.8991 GSE222574_0_v_2_lmna_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE244072_4_v_1_tfeb_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE157960_0_v_3_progesterone_mouse RummaGEO Drug Perturbation Signatures -1.0 null MKN-7 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.838625 GSE159678_4_v_3_chloroquine_human RummaGEO Drug Perturbation Signatures -1.0 null KURAMOCHI CCLE Cell Line Gene CNV Profiles -1.0 -3.21049 HCC1500 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.33632 KMCH1 DepMap CRISPR Gene Dependency 1.0 4.7936 HCC1897 CCLE Cell Line Gene CNV Profiles -1.0 -1.79543 MDST8 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.41796 UM-UC-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 OVSAHO Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.87395 NCI-H1975 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 GSE124410_3_v_4_stk40_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE223008_9_v_8_calhm6_mouse RummaGEO Gene Perturbation Signatures -1.0 null STRBP CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 4.08574 MKN45 DepMap CRISPR Gene Dependency 1.0 3.63471 GSE159678_4_v_7_chloroquine_human RummaGEO Drug Perturbation Signatures -1.0 null hsa-miR-19b TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 GSE140092_0_v_1_socs3_mouse RummaGEO Gene Perturbation Signatures -1.0 null RL cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.137 P2URK562 DepMap CRISPR Gene Dependency 1.0 4.74889 TCF7L1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 54.0502 FOXO1::ELK1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 55.0169 SUDHL6 CCLE Cell Line Gene CNV Profiles 1.0 1.89089 PECAPJ41CLONED2 DepMap CRISPR Gene Dependency 1.0 19.5101 OVKATE Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.94922 496100490_HIP_no dementia_no TBI_86_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.12503 GSE180185_7_v_1_setbp1_human RummaGEO Gene Perturbation Signatures -1.0 null GSE154767_2_v_0_adam10_mouse RummaGEO Gene Perturbation Signatures 1.0 null PDIA3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.78105 HCC1395 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.36726 ZNF384 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 194.894 KYSE-70 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.932928 GSE218580_1_v_2_fentanyl_mouse RummaGEO Drug Perturbation Signatures -1.0 null TBX4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.181 PMC6604319-13072_2019_278_MOESM3_ESM.xlsx-CEM_ect_TET2_DEGs_DMRs_hDMRs-Unnamed_5_TET2 Rummagene Transcription Factor Associations 2026 1.0 null COLO668 CCLE Cell Line Gene CNV Profiles -1.0 -1.46944 SQ1 CCLE Cell Line Gene CNV Profiles 1.0 1.70251 GSE160017,GSE160022_1_v_0_trem2_mouse RummaGEO Gene Perturbation Signatures 1.0 null GSE231648_0_v_3_lsm14b_mouse RummaGEO Gene Perturbation Signatures -1.0 null 496100519_HIP_probable Alzheimer's disease_TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.41155 NCIN87 CCLE Cell Line Gene CNV Profiles -1.0 -2.34506 TGIF2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.4466 SU-DHL-8 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.01199 MDAMB436 CCLE Cell Line Gene CNV Profiles -1.0 -1.34975 SCC-3 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.1943 Perturb_14233_KD_PABPN1_SRP326835 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 12.9476 496100470_HIP_possible Alzheimer's disease_TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.72066 RERF-LC-KJ Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.2419 RH41 CCLE Cell Line Gene CNV Profiles -1.0 -1.38456 ZNF140 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 52.2185 NCI-H1395 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.43308 496100635_HIP_dementia_TBI_77_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.57931 mRNA_MYC_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null KCI-MOH1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.932928 GSE116354,GSE117379_2_v_4_cox2_mouse RummaGEO Gene Perturbation Signatures 1.0 null IRF3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 119.068 NR3C1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.4677 OVCA 432 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.2419 TSC1_Deficiency_GDS4572_347_mouse_Naive CD8 T cells GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null PFSK1 DepMap CRISPR Gene Dependency 1.0 2.05092 NCI-H1975 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.508 496100576_HIP_dementia_TBI_81_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 4.56634 SKIC3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.08281 COLO 792 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.85119 BABAM2 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.23655 GSE220520_3_v_8_ethanol_mouse RummaGEO Drug Perturbation Signatures 1.0 null GSE180200,GSE180201_3_v_9_qpctl_mouse RummaGEO Gene Perturbation Signatures 1.0 null MYOC_OE_GDS1640_269_mouse_retina GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null OVCA 420 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.99114 CAOV3 DepMap CRISPR Gene Dependency 1.0 2.10866 MG-63 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.3801 mRNA_FOXJ2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null TUHR14TKB CCLE Cell Line Gene CNV Profiles -1.0 -1.70199 GSE223008_9_v_1_calhm6_mouse RummaGEO Gene Perturbation Signatures 1.0 null LMX1B JASPAR Predicted Human Transcription Factor Targets 2025 1.0 18.3919 cervix uteri GTEx Tissue Gene Expression Profiles 1.0 0.844527 SUM 1315M02 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.56934 GSE178255_2_v_7_tlr4_mouse RummaGEO Gene Perturbation Signatures 1.0 null NCI-H1869 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.870767 mRNA_NRIP1_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null GSE131161_1_v_4_rarres1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE149264,GSE149267_9_v_1_trp53_mouse RummaGEO Gene Perturbation Signatures -1.0 null hsa-miR-555 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.07142 SNU-484 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.19301 HN Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.981627 NCI-H1435 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.24935 hsa-miR-4690-3p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.843347 496100445_HIP_no dementia_no TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.20459 OVKATE CCLE Cell Line Gene CNV Profiles -1.0 -2.24477 Ciliated cell_Trachea_Mouse CellMarker Gene-Cell Type Associations 1.0 null EWSR1-FLI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 240.848 endometrium HPA Tissue Gene Expression Profiles 1.0 0.962938 EVSAT DepMap CRISPR Gene Dependency 1.0 3.35166 TBR1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.6107 Perturb_15031_Mut_Csf33_SRP347624 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -20.0 ac2 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.263 GSE168807_6_v_7_dnmt3a_mouse RummaGEO Gene Perturbation Signatures 1.0 null WDR89 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.19429 SW 1116 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.832577 ZNF24 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 33.2488 HCC2302 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.47097 ZNF677 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 29.771 GSE192870_2_v_0_palbociclib_human RummaGEO Drug Perturbation Signatures 1.0 null GSE202284,GSE202289_5_v_4_bmal1_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE197630_1_v_0_enzalutamide_human RummaGEO Drug Perturbation Signatures 1.0 null TBX15 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.1781 HCC1806 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.09346 NCIH2004RT DepMap CRISPR Gene Dependency 1.0 5.78922 CBFbeta_Deficiency_GDS3577_557_mouse_Regulatory T cells GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null GSE114992,GSE114993_0_v_5_irf5_mouse RummaGEO Gene Perturbation Signatures -1.0 null COLO-818 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.890553 GSE220520_6_v_9_ethanol_mouse RummaGEO Drug Perturbation Signatures 1.0 null HS 940.T Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.11319 NCI-H1437 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04625 THP1 CCLE Cell Line Gene CNV Profiles 1.0 1.3311 GSE154767_4_v_0_adam10_mouse RummaGEO Gene Perturbation Signatures 1.0 null OE19 COSMIC Cell Line Gene CNV Profiles 1.0 3.12177 TK Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.902115 Ciliated epithelial cell_Esophagus_Human CellMarker Gene-Cell Type Associations 1.0 null HCC461 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.47097 PMC8554124-DataSheet2.XLSX-57-CEBPD_CEBPD Rummagene Transcription Factor Associations 2026 1.0 null OCI-M2 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.0456 GSE148066,GSE157787_11_v_7_n4bp1_mouse RummaGEO Gene Perturbation Signatures 1.0 null ChIP_CDX2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null UPCISCC200 DepMap CRISPR Gene Dependency 1.0 2.48715 mRNA_DLX3_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null GSE166169_1_v_3_elp3_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE114690_2_v_3_tnfsf14_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE151689_0_v_2_panobinostat_mouse RummaGEO Drug Perturbation Signatures 1.0 null MTF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 26.1022 GSE149264,GSE149267_4_v_5_trp53_mouse RummaGEO Gene Perturbation Signatures 1.0 null ETV2::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 54.6669 GSE173810_4_v_6_igf2_mouse RummaGEO Gene Perturbation Signatures 1.0 null IGR39 CCLE Cell Line Gene CNV Profiles -1.0 -1.44731 STK17B CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.16897 OKAJIMA Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.11099 HNF1B JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.1364 ZIM3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 51.0279 Perivascular astrocyte TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.323 CAMA1 CCLE Cell Line Gene CNV Profiles 1.0 1.59225 ZNF667 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 33.7312 GSE101336_1_v_2_decitabine_mouse RummaGEO Drug Perturbation Signatures -1.0 null GSE171837_3_v_1_bortezomib_mouse RummaGEO Drug Perturbation Signatures -1.0 null SCCPDH CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.62509 H3K9me3_CH12.LX_mm9_3 ENCODE Histone Modification Site Profiles 1.0 null FOXO1::ELK3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 54.3709 SCMCRM2 DepMap CRISPR Gene Dependency 1.0 2.26699 H3K9me3_megakaryocyte_mm9_3 ENCODE Histone Modification Site Profiles 1.0 null Perturb_65_KO_Cabin1_SRP252595 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 12.573 Ciliated cell_Lung_Human CellMarker Gene-Cell Type Associations 1.0 null PPARGC1B_Hypomorphic Mutation_GDS2515_695_mouse_Skeletal muscle - (quadriceps muscles) GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null hsa-miR-19a TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 GSE114992,GSE114993_7_v_5_irf5_mouse RummaGEO Gene Perturbation Signatures -1.0 null 496100337_HIP_possible Alzheimer's disease_no TBI_100+_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.41721 PMC12616242-can-24-3452_supplementary_table_s2_suppst2.xlsx-Down_bins-Down_bins_loosing_H3K27me3_in_hpMSC-EWSR1_FLI1_FLI1 Rummagene Transcription Factor Associations 2026 1.0 null mRNA_OTX2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null GSE242199_6_v_11_ntrk2_human RummaGEO Gene Perturbation Signatures 1.0 null CGRRF1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.20534 NFATC3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 22.6513 NR4A1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 23.7202 LXF-289 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.838625 IKZF2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.5482 ZNF418 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 27.0495 Tcf12 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 22.2977 ARTN CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.01491 FAM3A CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.41126 GSE217115_2_v_4_alectinib_mouse RummaGEO Drug Perturbation Signatures -1.0 null TBX2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 30.2921 AN3 CA Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.889745 GSE234289_5_v_2_rfx6_human RummaGEO Gene Perturbation Signatures 1.0 null EOMES JASPAR Predicted Human Transcription Factor Targets 2025 1.0 26.0154 GSE180200,GSE180201_5_v_6_qpctl_mouse RummaGEO Gene Perturbation Signatures -1.0 null UMC-11 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.46485 HCC1493 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.2199 496100584_HIP_probable Alzheimer's disease_no TBI_95-99_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.86281 Perturb_15284_KO_Trp73_SRP067006 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -20.0 SCC-15 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.2292 MDA-MB-330 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.18036 HCC4006 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.6585 PPARG JASPAR Predicted Human Transcription Factor Targets 2025 1.0 28.75 HOP62 DepMap CRISPR Gene Dependency 1.0 2.31539 MSTO211H DepMap CRISPR Gene Dependency 1.0 12.6046 HEYL CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.0443 PE01 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.5661 GSE210580_3_v_2_rag2_mouse RummaGEO Gene Perturbation Signatures 1.0 null BARHL1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 15.2675 SHANK3_KD_GDS4759_338_mouse_E16 primary cortical neuron cultures GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null Spleen GTEx Tissue Gene Expression Profiles 2023 1.0 1.45248 ENO1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 4.08569 CPC-N Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.29689 GSE130383_2_v_3_gps2_mouse RummaGEO Gene Perturbation Signatures -1.0 null ZNF860 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.55332 KD DepMap CRISPR Gene Dependency 1.0 2.08425 H3K9me3_megakaryocyte_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null CAPAN2 CCLE Cell Line Gene CNV Profiles -1.0 -1.64161 SNU1196 DepMap CRISPR Gene Dependency 1.0 10.4153 GSE114992,GSE114993_4_v_6_irf5_mouse RummaGEO Gene Perturbation Signatures 1.0 null lung HPA Tissue Gene Expression Profiles 1.0 1.24779 GSE100316_5_v_2_mtor_mouse RummaGEO Gene Perturbation Signatures 1.0 null ZNF536 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.21859 mRNA_AES_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null GSE228162_2_v_5_nr2f6_mouse RummaGEO Gene Perturbation Signatures -1.0 null Brain - Spinal cord (cervical c-1) GTEx Tissue Gene Expression Profiles 2023 1.0 1.1122