association dataset threshold value standardized value Lhx8 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 18.6567 Central amygdalar nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.68705 smallintestine BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -0.890428 NA-29-UI75_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.47913 NE-00-JZ19_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.53278 MCC13 COSMIC Cell Line Gene Mutation Profiles 1.0 null HCC95 CCLE Cell Line Gene CNV Profiles -1.0 -1.62736 H3K9me3_H1-hESC_hg19_1 ENCODE Histone Modification Site Profiles 1.0 null EZH2_keratinocyte_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null skin GTEx Tissue Gene Expression Profiles 1.0 2.16825 r5 part of spinal vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.27394 pterigoid muscle trigeminal motor cell group Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.05413 integumentary system disease DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.389653 Perturb_15539_Mut_Ezh2_SRP220248 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 7.69562 r8 part of gigantocellular reticular area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.32799 hsa-miR-4441 TargetScan Predicted Conserved microRNA Targets 1.0 0.670641 Meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.654 GSE217552_3_v_0_fisetin_human RummaGEO Drug Perturbation Signatures -1.0 null MYC_H1-hESC_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null mantle zone of the Fc Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.05336 chr1_153209639_T_C_b38 GTEx eQTL 2025 1.0 3.62117 BB-11-JI42_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.554 psoriasis DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.705547 periventricular stratum of the PBC Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.0191 PMC6651063__F6 PFOCR Pathway Figure Associations 2023 1.0 null BXPC-3 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.11873 U2AF1_02_165 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 4.47249 DC-23-UM36_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.46855 mantle zone of r3Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.19344 Perturb_1295_KO_Trp53_SRP298760 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -3.79782 CA-68-KG29_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.14871 PEO4 DepMap CRISPR Gene Dependency 1.0 3.32263 temporal muscle trigeminal motor cell group Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.47378 GSE161055,GSE161056_1_v_0_hira_mouse RummaGEO Gene Perturbation Signatures 1.0 null oral mucosa HPA Tissue Protein Expression Profiles 1.0 0.872387 TD-48-XJ84_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.2874 496100431_FWM_no dementia_TBI_95-99_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 4.42542 MEF2A JASPAR Predicted Transcription Factor Targets 1.0 null 496100402_FWM_no dementia_no TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.25802 subbrachial nucleus, rostral part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.26496 NCIH929 CCLE Cell Line Gene CNV Profiles 1.0 1.6182 LTBR_INHIBITION - 35 Day_GDS2005_732_mouse_Lymph nodes (MG-430B) GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null striatal part of olfactory tuberculum Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.51362 DC-47-KV62_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.20356 BC-82-PP66_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.89864 tuberal nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.90432 PMC6651063__F6 PFOCR Pathway Figure Associations 2024 1.0 null IM95 DepMap CRISPR Gene Dependency 1.0 6.52406 hsa-miR-362-3p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.20993 Islet cell tumor DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.071 Stratum corneum TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.375 HSF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.9346 GSE193351_1_v_0_ruxolitinib_human RummaGEO Drug Perturbation Signatures 1.0 null Plant embryo TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.948 Leaf epidermal cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.06 PMC11053886__F2 PFOCR Pathway Figure Associations 2024 1.0 null KB-78-BE93_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.565802 NB5 COSMIC Cell Line Gene Mutation Profiles 1.0 null KATO III Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.914564 MA-43-MR37_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.744601 PMC2856676__F1 PFOCR Pathway Figure Associations 2024 1.0 null HOXB9_02_15 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.78136 GSE139455_2_v_5_stat3_human RummaGEO Gene Perturbation Signatures 1.0 null Floral meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.219 AC-30-XU83_0.01uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 5.74258 PMC2785984__F7 PFOCR Pathway Figure Associations 2023 1.0 null Mesophyll TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.184 Integumentary system disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.441 G96 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.07065 TEF-1 MotifMap Predicted Transcription Factor Targets 1.0 null Plant primordium TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.284 QA-14-AU91_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.444 GSE234340_12_v_2_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null H3K9me3_G1E-ER4_mm9_3 ENCODE Histone Modification Site Profiles 1.0 null HCC1143 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.914564 GSE193993_1_v_2_sstr2_human RummaGEO Gene Perturbation Signatures 1.0 null preoptic BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -1.97079 reticular formation of CoPD Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.12395 NKX2-8 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.1709 island of Calleja major Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.90432 Urogenital system TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 JA-85-SW39_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.446648 Anterior hypothalamic nucleus, anterior part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.18124 hsa-miR-4434 TargetScan Predicted Conserved microRNA Targets 1.0 0.541706 KURAMOCHI CCLE Cell Line Gene Expression Profiles -1.0 -1.68947 hsa-miR-4766-5p TargetScan Predicted Conserved microRNA Targets 1.0 0.90397 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-JUN_JUN Rummagene Transcription Factor Associations 2026 1.0 null fasciola cinerea Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.0521 CAL120 CCLE Cell Line Gene CNV Profiles -1.0 -1.45672 hsa-miR-670 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.965816 SE-15-AV21_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.455965 GA-87-BR97_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.00491 Secondary motor area, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.3184 Perturb_5511_KO_Vdr/Med1_SRP282245 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -9.56777 GRHL2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.6056 CB-49-OG36_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.867165 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 19605494-TableS1 GeneSigDB Published Gene Signatures 1.0 null mantle zone of r1Tr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.68705 hsa-miR-4744 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.0155 TEN CCLE Cell Line Gene Expression Profiles -1.0 -1.71379 SC-25-HE80_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.998261 Retrosplenial area, dorsal part, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.12487 r6 part of ventral gigangocellular reticular area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.20449 Asthma GWAS Catalog SNP-Phenotype Associations 2025 1.0 1.2699 Inflorescence meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.149 LD-69-ZV56_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.49132 neuropeptide-S nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.50887 496100336_TCx_no dementia_no TBI_90-94_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.90613 GSE149870_0_v_1_pfn1_mouse RummaGEO Gene Perturbation Signatures 1.0 null CF-24-KQ98_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.57887 Perturb_5728_KO_Cdh1_SRP149531 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 20.0 Inappropriate ADH syndrome DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.136 Perturb_16441_KD_IL13RA1_SRP314695 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 -20.0 GE-47-OO30_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.19246 GSE264621_1_v_3_secretin_human RummaGEO Drug Perturbation Signatures 1.0 null GE-40-GQ38_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.491779 S0-EE-Y7IR_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.271641 FB-33-LI31_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.325922 ONECUT1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.3865 Cortical amygdalar area, posterior part, lateral zone, layer 3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.65723 JUN JASPAR Predicted Transcription Factor Targets 1.0 null hsa-miR-412 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 JF-96-HH81_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.408969 GSE188870,GSE188871_1_v_2_kat7_mouse RummaGEO Gene Perturbation Signatures 1.0 null MA-31-VM30_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.373673 RUNX2 JASPAR Predicted Transcription Factor Targets 1.0 null mRNA_MYCN_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null Rosette leaf TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.561 isthmic liminal part of the periaqueductal gray Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.08867 Lateral septal nucleus, rostral (rostroventral) part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.2526 PANC 05.04 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04481 LD-69-ZV56_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.28567 496100353_HIP_no dementia_TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.48917 AA-88-PJ86_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.823099 AC-83-LN99_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.36579 Sapling TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.719 PF-59-CY33_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.493525 EE-01-FB85_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.61067 DA-35-DU85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 9.0194 JF-16-BD66_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.405415 Connective tissue disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.334 UM-UC-3 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.914564 hsa-miR-3978 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.809003 Nr5a2 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 25.5595 Lateral terminal nucleus of the accessory optic tract Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.90432 GSE209911_0_v_1_ncstn_human RummaGEO Gene Perturbation Signatures -1.0 null Tbx6 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 18.6401 H3K4me1_keratinocyte_hg19_1 ENCODE Histone Modification Site Profiles 1.0 null adipose tissue GTEx Tissue Gene Expression Profiles 1.0 1.19581 IC-76-JU42_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.228082 SCRT1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 19.9983 IKZF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 40.5898 NCI-H810 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 HS 578T Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.26892 superficial stratum of the Fc Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.0521 BF-10-IO69_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.975981 Chloroplast inner membrane COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.929 paraventricular nucleus, dorsal part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.22782 Root apical meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.658 Ventral posterolateral nucleus of the thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.28812 KAT2B_02_184 KnockTF Gene Expression Profiles with Transcription Factor Perturbations -1.0 -0.6612 CC-61-HH09_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.11065 EZH2_myotube_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null plant TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.305361 KLF4_01_341 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 5.56133 parabrachial part of the periaqueductal gray Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.01871 YY1 MotifMap Predicted Transcription Factor Targets 1.0 null hsa-miR-146b-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 EBC-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.76482 PMC7481169-277_2020_4194_MOESM7_ESM.xlsx-RUNX1_R139G-Unnamed_1_RUNX1 Rummagene Transcription Factor Associations 2026 1.0 null LAMA84 CCLE Cell Line Gene Expression Profiles 1.0 1.87999 GSE233679_14_v_15_nicotinamide_human RummaGEO Drug Perturbation Signatures -1.0 null r6 part of ventral parvicellular reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.0254 SOX4 MotifMap Predicted Transcription Factor Targets 1.0 null PTEN_KD_GDS2958_101_human_SKBR-3 MAMMARY ADENOCARCINOMA cell line GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null A-Vietnam-1203_CIP048_RG4-2004(H5N1)NS1trunc124_1day-MOI-10^3_None_GSE44445 GEO Signatures of Differentially Expressed Genes for Viral Infections -1.0 -2.23313 ISTMES2 CCLE Cell Line Gene Expression Profiles 1.0 1.47517 NUGC-4 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.870985 skin disease DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.402692 GSE210662_2_v_1_znf165_human RummaGEO Gene Perturbation Signatures 1.0 null Perturb_13039_KD_Tardbp_SRP314028 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 20.0 PMC4755536__F7 PFOCR Pathway Figure Associations 2023 1.0 null FE-29-XM40_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.378095 Primary somatosensory area, nose, layer 6b Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.01785 KYSE220 DepMap CRISPR Gene Dependency 1.0 6.66544 Perturb_18385_KO_Izumo1r_SRP354764 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 2.55149 NCIH1876 CCLE Cell Line Gene CNV Profiles 1.0 2.09282 NCIH2126 CCLE Cell Line Gene CNV Profiles 1.0 1.32963 increased circulating aspartate transaminase level MGI Mouse Phenotype Associations 2023 1.0 null HCC1599 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.79415 FOS::JUN JASPAR Predicted Human Transcription Factor Targets 2025 1.0 23.785 intermediate stratum of r6Lim Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.02422 GSE202434,GSE202438_13_v_0_talazoparib_human RummaGEO Drug Perturbation Signatures 1.0 null parastrial preoptic nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.44237 FOS::JUND JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.8002 ZR-75-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.917515 intermediate isthmic part of the dorsal raphe nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.35714 Ventral posteromedial nucleus of the thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.89531 RFX5 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 43.13 GSE232631_4_v_1_brca2_mouse RummaGEO Gene Perturbation Signatures 1.0 null CDX4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.3897 GSE193993_0_v_3_sstr2_human RummaGEO Gene Perturbation Signatures 1.0 null 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 2.17006 GSE222758_0_v_4_clofazimine_human RummaGEO Drug Perturbation Signatures 1.0 null BHY Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.61817 GSE139455_0_v_6_stat3_human RummaGEO Gene Perturbation Signatures -1.0 null BB-87-SF89_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.12198 terminal subparaventricular area of THyA Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.09242 CAL33 CCLE Cell Line Gene Expression Profiles -1.0 -1.48027 AA-11-RO46_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.35515 GSE136894_1_v_3_psen1_mouse RummaGEO Gene Perturbation Signatures 1.0 null DB-56-XL71_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.78566 Entorhinal area, medial part, ventral zone Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.68705 SUM 229PE Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.0436 OVCAR-8 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.1909 BE-31-XV38_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.98104 GSE234340_3_v_2_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE234340_3_v_7_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null r3 part of lateral pontine nuclei Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.1458 JA-63-WB39_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.235539 GSE173997_3_v_0_clic4_mouse RummaGEO Gene Perturbation Signatures -1.0 null NCIH1395 CCLE Cell Line Gene CNV Profiles 1.0 2.69411 mRNA_TCF7L2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null BD-90-DK64_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.534273 A-Vietnam-1203_CIP048_RG4-2004(H5N1)PB2-627E_2day-MOI-10^4_None_GSE43301 GEO Signatures of Differentially Expressed Genes for Viral Infections 1.0 1.30495 hsa-miR-3685 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.809003 PMC11923433-BLOOD_BLD-2024-025618-mmc2.xlsx-S3_Specific_genes_in_CEBPA-dm-Supplemental_Table_3_The_subtype-specific_enriched_marker_genes_in_CEBPA-dm_subtype_patients_CEBPA Rummagene Transcription Factor Associations 2026 1.0 null JA-85-SW39_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.206938 hsa-miR-769-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.7397 AC-05-MR83_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.748805 TEAD4 ENCODE Transcription Factor Targets 1.0 null AB-18-YN11_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.9431 NCI-H1993 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 AE-14-NN26_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.5645 YMB-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.918853 hsa-miR-3691-3p TargetScan Predicted Conserved microRNA Targets 1.0 0.32519 disease of anatomical entity DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.040501 Medial preoptic nucleus, lateral part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.09732 AB-18-YN11_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 5.58527 NCI-H1395 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.6993 Paraflagellar rod COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.041 AE-85-LR48_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.71239 Axillary bud meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.613 PMC3367986__F2 PFOCR Pathway Figure Associations 2023 1.0 null COLO-824 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 PMC11772884-41421_2024_747_MOESM6_ESM.xlsx-8_DEGs_RUNX1-OE_vs_control-Gene_Symbol_RUNX1 Rummagene Transcription Factor Associations 2026 1.0 null Copula pyramidis, molecular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.07771 GSE201401_2_v_0_fgfr1_mouse RummaGEO Gene Perturbation Signatures 1.0 null DA-81-VY50_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.67271 Msgn1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 21.1458 nucleus of the stria terminalis, medial division, ventral part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.91934 HCC1171 CCLE Cell Line Gene CNV Profiles 1.0 2.03476 Kdm1a_KD_GDS5055_275_mouse_3T3-L1 preadipocytes - 48h GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null 496100513_TCx_no dementia_TBI_95-99_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.81332 lateral wings of the dorsal raphe nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.05498 Gata-6_KO_GDS4782_330_mouse_Adult heart during pressure overload GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null BB-62-SZ35_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.377624 PMC11868582-41423_2025_1264_MOESM4_ESM.xlsx-Table_S10-Table_S10_List_of_FICZ-induced_or_FICZ-suppressed_and_OVOL1-dependent_genes_OVOL1 Rummagene Transcription Factor Associations 2026 1.0 null WC-16-IR43_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.482272 Integrator complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.373 Posterior parietal association areas, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.25958 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-HAND1_pos_targets-Gene_HAND1 Rummagene Transcription Factor Associations 2026 1.0 null SD-82-GT69_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.220321 abnormal skin morphology IMPC Knockout Mouse Phenotypes 1.0 null GD-79-TW34_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.566343 ZNF582 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 41.3891 KYSE520 DepMap CRISPR Gene Dependency 1.0 2.23706 Lhx3 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 29.5 PMC10164164-41598_2023_34435_MOESM2_ESM.xlsx-FSK_CIC_KO_cp_to_CTL-gene_id_CIC Rummagene Transcription Factor Associations 2026 1.0 null A-Vietnam-1203_CIP048_RG4-2004(H5N1)NS1trunc124_1day-MOI-10^4_None_GSE44445 GEO Signatures of Differentially Expressed Genes for Viral Infections -1.0 -1.76959 AE-19-BK71_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.39449 ZNF143 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 45.1976 intermediate part of r6B Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.90173 mRNA_RXRA_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null Perturb_18390_KO_923_SRP286259 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -1.84711 UBB_KO_GDS3906_492_mouse_Testis - 14 Days GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null BC-15-EL49_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.70031 Disease of anatomical entity DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.304 intermediate stratum of r3Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.11273 SJCRH30 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.03148 Female reproductive system TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 NCI-H1876 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 NCI-H1703 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.893348 a2 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.88 KMS20 CCLE Cell Line Gene CNV Profiles 1.0 1.84834 r4 part of pontine raphe cell population Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.7378 Root primordium TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.536 SNU503 DepMap CRISPR Gene Dependency 1.0 2.34484 SB-75-UH17_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.347895 RERF-LC-OK Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.88328 hsa-miR-4733-3p TargetScan Predicted Conserved microRNA Targets 1.0 1.26663 PMC4865098__F7 PFOCR Pathway Figure Associations 2023 1.0 null PMC9179306__F5 PFOCR Pathway Figure Associations 2024 1.0 null 184A1N4 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.640944 496100397_PCx_no dementia_no TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.40204 CHAGOK1 CCLE Cell Line Gene CNV Profiles 1.0 1.64853 GSE234340_9_v_7_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null CREB1_01_195 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 2.62253 dorsalstriatum BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -0.932919 OE-75-WF43_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.61274 RFX1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 28.256 mantle zone of r7BI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.95384 Entorhinal area, medial part, ventral zone, layer 3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.60072 striatal amygdala Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.1458 ZNF652 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 18.5181 DU145 CCLE Cell Line Gene Expression Profiles -1.0 -1.808 Perturb_14788_OE_Slit2_SRP267596 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -3.74661 CC-18-YW57_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.323416 ZNF768 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 37.9445 OVCAR-5 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.870985 PC-62-AQ92_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.269803 MA-58-RR04_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.208082 NA-16-OJ70_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.222732 NCI-H2122 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.06628 Usher syndrome type 3 DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.015 HSF4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 22.7338 GATA3 JASPAR Predicted Transcription Factor Targets 1.0 null Usher syndrome type 3A DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.366 superficial stratum of Hb Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.16609 CB-32-EI69_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.80224 S0-EE-XKW4_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.541458 SLF1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.60062 H3118 DepMap CRISPR Gene Dependency 1.0 2.66444 FOXK2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.2028 superficial stratum of r5Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.27394 Cuneate nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.2388 Gustatory areas, layer 6a Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.3509 tissues, cell types and enzyme sources TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.051482 Silique TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.867 PTEN_KD_GDS4759_337_mouse_E16 primary cortical neuron cultures GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null DE-58-OW37_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.214619 GSE232631_0_v_3_brca2_mouse RummaGEO Gene Perturbation Signatures 1.0 null PSMG3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.2836 ERF::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 23.8137 Perturb_15547_KO_Ar_SRP069731 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -20.0 Hair follicle bulge stem cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.693 SET2 COSMIC Cell Line Gene Mutation Profiles 1.0 null disease DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.039633 AD-30-VB23_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.32214 BC-62-RZ55_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.55234 HA-22-CY42_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.60581 Lens fiber TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.76 Outer kinetochore COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.864 mRNA_OTX2_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null GSE145215_0_v_1_krt13_mouse RummaGEO Gene Perturbation Signatures 1.0 null r1 part of ventral parvicellular reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.31866 Corneocyte TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.771 intermediate stratum of r2Tr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.56356 Flag leaf TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.504 PMC10990851__F9 PFOCR Pathway Figure Associations 2024 1.0 null GSE128333_4_v_5_tcf4_human RummaGEO Gene Perturbation Signatures 1.0 null AE-36-GL26_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.372406 BB-87-SF89_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.315576 hippocampus BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -1.51346 Psoriasis 4 DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 2.204 Primary somatosensory area, barrel field, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.07208 nucleus of Barrington Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.47294 EAhy 926 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.501 Lateral root TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.782 SOX10 MotifMap Predicted Transcription Factor Targets 1.0 null 496100458_FWM_no dementia_no TBI_88_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.41093 NCI-H3122 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 PMC12616242-can-24-3452_supplementary_table_s2_suppst2.xlsx-Up_bins-Up_bins_gaining_H3K27me3_in_hpMSC-EWSR1_FLI1_FLI1 Rummagene Transcription Factor Associations 2026 1.0 null OUMS23 CCLE Cell Line Gene Expression Profiles 1.0 2.40872 ATF1 ENCODE Transcription Factor Targets 1.0 null GSE139455_4_v_6_stat3_human RummaGEO Gene Perturbation Signatures -1.0 null Orbital area, medial part, layer 6a Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.54048 SOX2-27498859-CHIP-SEQ-STOMACH-MOUSE ChEA Transcription Factor Targets 2022 1.0 null RD-90-OY66_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.82343 DLD1 CCLE Cell Line Gene Expression Profiles 1.0 1.67188 plexiform layer of TuStr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.0464 AA-85-LB25_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.314052 FA-36-VA24_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.335147 superficial stratum of PcPV Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.74904 MOR Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.06504 Juvenile rheumatoid arthritis DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.576 HslUV protease complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.69 Common variable immunodeficiency 8 DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.586 RD-92-QT24_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.447431 SOX7_OE_GDS3300_123_human_HESC (CA1 and CA2) GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null Sox17 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 19.6092 KNS62 CCLE Cell Line Gene Expression Profiles -1.0 -2.46266 H2AFZ_CD14-positive monocyte_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null Hair follicle dermal papilla cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.76 Entorhinal area, medial part, ventral zone, layer 2 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.51707 intermediate stratum of TG Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.26682 DC-23-UM36_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.22022 oe19 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.036 QA-58-CX23_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.9854 Perturb_16477_KO_Cyp26b1_SRP015254 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -20.0 HSF1_01_112 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 0.7178 ZNF354C JASPAR Predicted Human Transcription Factor Targets 2025 1.0 14.8125 MDA-MB-435 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.26767 CREB1 JASPAR Predicted Transcription Factor Targets 1.0 null MDAMB157 DepMap CRISPR Gene Dependency 1.0 2.42642 ME-180 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.47097 USF2 JASPAR Predicted Transcription Factor Targets 1.0 null Musculoskeletal system disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.294 SOX9 MotifMap Predicted Transcription Factor Targets 1.0 null Basal cortex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.604 BRCA1 JASPAR Predicted Transcription Factor Targets 1.0 null NCIH526 DepMap CRISPR Gene Dependency 1.0 2.27544 WDR75 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.22282 NR2F2_01_07 KnockTF Gene Expression Profiles with Transcription Factor Perturbations -1.0 -0.61525 Gigantocellular reticular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.08219 SUZ12_H1-hESC_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null NCI-H1623 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.38263 GSE87615_1_v_3_ascl1_human RummaGEO Gene Perturbation Signatures -1.0 null OPM-2 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.918853 hsa-miR-320e TargetScan Predicted Conserved microRNA Targets 1.0 0.517189 GSE123958,GSE123959_0_v_1_mta1_human RummaGEO Gene Perturbation Signatures 1.0 null MDAMB157 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 1.98491 BB-79-AG41_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.407085 ZC3H11A_02_44 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 4.02237 MD-86-UW46_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.40239 MDAMB231 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.553693 AC-36-TL21_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.86825 Hmga1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 26.3687 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MYC_MYC Rummagene Transcription Factor Associations 2026 1.0 null SYNCRIP_OE_GDS4596_85_human_SW480 GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null PMC10274772-media-2.xlsx-TFAP2A_motif_in_promoters-TFAP2A_target_genes_with_TFAP2A_motif_in_their_promoter_region_n_64_TFAP2A Rummagene Transcription Factor Associations 2026 1.0 null Stoma TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.309 IC-28-HS37_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.12371 HCC38 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.641167 GSE254649_3_v_0_cstf2_human RummaGEO Gene Perturbation Signatures 1.0 null DF-75-OU25_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.235786 BD-73-TX58_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.56119 KYAE1 DepMap CRISPR Gene Dependency 1.0 2.75769 GSE210662_2_v_0_znf165_human RummaGEO Gene Perturbation Signatures 1.0 null r1 part of dorsal raphe nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.31032 PMC5101194__F6 PFOCR Pathway Figure Associations 2023 1.0 null CHAGO-K-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.78302 Immune system disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.231 BD-69-XG81_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.653413 ST486 CCLE Cell Line Gene CNV Profiles 1.0 1.3546 Folium-tuber vermis (VII) Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.00376 HCC1171 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.60052 mantle zone of r2Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.45435 PECAPJ49 CCLE Cell Line Gene CNV Profiles -1.0 -2.12403 CL11 CCLE Cell Line Gene Expression Profiles 1.0 2.25277 GSE234043_0_v_1_abcb1_human RummaGEO Gene Perturbation Signatures 1.0 null intermediate stratum of SePal Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.04457 hsa-miR-3690 TargetScan Predicted Conserved microRNA Targets 1.0 0.23348 Perturb_4431_KO_Tnfrsf1b_SRP052924 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -2.14472 Primary somatosensory area, upper limb, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.22906 NTERA-2 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.839544 zfx_17448993_embryonic_stem_cell_lof_mouse_gpl1261_gds2718 GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations -1.0 -0.060329 Perturb_3818_KO_Tnfrsf1a_SRP126581 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -3.51795 ATF1_K562_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null hsa-miR-4293 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 PMC4580636-pone.0138782.s005.xls-Sheet1-Table_S3_List_of_Genes_with_RUNX1_binding_sites_in_each_Cytogenetic_Group_RUNX1 Rummagene Transcription Factor Associations 2026 1.0 null YMB-1-E Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.918853 KHM-1B Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.06925 vagina HPA Tissue Protein Expression Profiles 1.0 0.872387 K562_Fluorouracil_10nM_24h Sci-Plex Drug Perturbation Signatures 1.0 0.0207761 Mel-18_KD_GDS2724_103_human_DAOY medulloblastoma cells GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null VA-06-DB75_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 6.49171 PMC10335677-pbio.3002161.s009.xls-MLL_siRNA_DEGs-Ensembl_ID_KMT2A Rummagene Transcription Factor Associations 2026 1.0 null TBL1XR1 ENCODE Transcription Factor Targets 1.0 null Perturb_6629_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 Leaf sheath TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.711 intermediate stratum of r1Lim Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.31866 intermediate stratum of Hb Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.21906 Irf1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 35.5537 RFX2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 42.9812 KLF7_01_342 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.42709 CTDK-1 complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.062 KMCH1 DepMap CRISPR Gene Dependency 1.0 2.61217 FOXO1::ELK3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 30.6607 CE-72-GF32_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.301073 NCI-H1395 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 Flower stalk TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.785 PMC10794847-mmc5.xlsx-PIAS1_KD_up-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 PD-60-FM93_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.581979 496100529_HIP_no dementia_no TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 5.22182 superficial stratum of r5BM Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.71893 LTBR_INHIBITION - 2 Days_GDS2005_729_mouse_Lymph nodes (MG-430B) GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null dermatitis DISEASES Text-mining Gene-Disease Association Evidence Scores 1.0 0.567609 CHAGO-K-1 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 S0-EE-WJKI_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.22858 Callus TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.992 r7 basal plate Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.12527 PMC2856676__F1 PFOCR Pathway Figure Associations 2023 1.0 null GSE234340_1_v_7_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null periventricular stratum of r1BM Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.17724 SCC4 CCLE Cell Line Gene CNV Profiles -1.0 -1.77059 HCC1011 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.96194 intermediate part of r7B Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.95326 BC-76-HY47_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.333855 PAX2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.9006 PCBP2_02_135 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 4.52356 VMRCRCW DepMap CRISPR Gene Dependency 1.0 2.06678 m1Lim part of the midbrain reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.11633 PPP1R1A_KO_GDS1920_708_mouse_hippocampus GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null ZB-16-BR73_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.55512 SCC9 DepMap CRISPR Gene Dependency 1.0 10.8363 Perturb_16464_OE_Zfp36_SRP255505 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 2.60787 Whole body TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 etanercept_homo sapiens_gpl570_gse41663 GEO Signatures of Differentially Expressed Genes for Small Molecules 1.0 null r2 part of superior vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.44494 SRF_02_21 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.2854 Hypocotyl TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.951 Leaf tip TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.56 hsa-miR-557 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.07142 GSE193993_1_v_3_sstr2_human RummaGEO Gene Perturbation Signatures 1.0 null GA-28-SS67_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.324701 SNU407 CCLE Cell Line Gene Expression Profiles 1.0 1.97102 DA-27-BW40_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.07556 Organism form TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 Shoot apical meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.749 NCIH1623 CCLE Cell Line Gene Expression Profiles 1.0 1.53539 Crus 1, granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.04026 CA-75-HA22_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.812437 DA-81-VY50_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.351916 BNC2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.8144 ventral posteromedial nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.0464 SNU-423 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.15848 intermediate stratum of r6BI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.42041 HOS COSMIC Cell Line Gene CNV Profiles 1.0 2.283 GSE193258,GSE193259_9_v_15_osimertinib_human RummaGEO Drug Perturbation Signatures 1.0 null H3K9me3_G1E_mm9_2 ENCODE Histone Modification Site Profiles 1.0 null AB-18-YN11_0.01uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.648845 MCF10F Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -1.64936 PMC10335677-pbio.3002161.s009.xls-MLL_siRNA_DEGs-Ensembl_Symbol_KMT2A Rummagene Transcription Factor Associations 2026 1.0 null CE-18-CG29_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.209652 HCC1937 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.856125 GSE224556,GSE224557_8_v_1_aire_mouse RummaGEO Gene Perturbation Signatures -1.0 null hsa-miR-1912 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.921135 lateral terminal nucleus of the accessory optic tract, ventral part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.33346 AKT1_knockdown_135_GSE31534 GEO Signatures of Differentially Expressed Genes for Kinase Perturbations -1.0 -1.34066 fallopian tube GTEx Tissue Gene Expression Profiles 1.0 0.932202 TE15 CCLE Cell Line Gene CNV Profiles -1.0 -2.14765 mRNA_ZSCAN4C_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null SNU1076 CCLE Cell Line Gene CNV Profiles -1.0 -1.39802 USF1_02_26 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.2854 JURLMK1 CCLE Cell Line Gene Expression Profiles 1.0 1.61576 HCC1954 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.8466 AB-85-JR73_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.396687 intermediate stratum of AStr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.20615 HCC2157 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 MDST8 CCLE Cell Line Gene Expression Profiles 1.0 1.35925 abnormal skin morphology MGI Mouse Phenotype Associations 2023 1.0 null BF-02-AC35_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.283601 CC-09-YG11_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.241701 medial amygdala, posterodorsal part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.10742 NCIH1568 CCLE Cell Line Gene CNV Profiles 1.0 1.54274 DB-07-WB29_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.206086 SK-MEL-31 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.69505 External cuneate nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.31061 ZNF76 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 28.0812 COLO205 CCLE Cell Line Gene Expression Profiles 1.0 2.65495 SNU16 DepMap CRISPR Gene Dependency 1.0 4.53709 NKX2-3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.3791 r3 part of lateral vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.19344 GSE114013,GSE114014_0_v_3_itraconazole_human RummaGEO Drug Perturbation Signatures -1.0 null MDA-MB-361 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.47097 superficial stratum of r3BI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.14023 NCI-H2009 COSMIC Cell Line Gene Mutation Profiles 1.0 null OVISE CCLE Cell Line Gene Expression Profiles -1.0 -1.50206 PMC5428929__F6 PFOCR Pathway Figure Associations 2024 1.0 null oocyte BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 0.959047 SNU1214 CCLE Cell Line Gene Expression Profiles 1.0 1.87905 CAMA1 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -0.710472 bladder GTEx Tissue Gene Expression Profiles -1.0 -2.09787 GB-57-XV52_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.64383 BB-86-BE39_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.58383 Perturb_14644_KO_PC_SRP388542 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 duodenum HPA Tissue Protein Expression Profiles 1.0 0.872387 Caryopsis TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.335 substantianigra BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -0.845773 Adventitious root TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.035 HUH-7 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.0436 hsa-miR-3135b TargetScan Predicted Conserved microRNA Targets 1.0 0.632343 posteromedial cortical amygdaloid area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.45435 H3K27me3_Fetal Lung Roadmap Epigenomics Histone Modification Site Profiles 1.0 null GSE146045_1_v_0_lama3_mouse RummaGEO Gene Perturbation Signatures -1.0 null FD-37-GE41_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.204728 PMC8104016-hcg-12-e002353-s006.xlsx-mTHP-1-LPS_Prom-Prom_Prom-GWAS-RefSeq_Name_1_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HOXB6_HOXB6 Rummagene Transcription Factor Associations 2026 1.0 null intermediate stratum of r2Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.44494 CORL279 CCLE Cell Line Gene Expression Profiles -1.0 -1.87588 KC-32-GO33_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.346511 r3 roof plate Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.23802 SUZ12 ENCODE Transcription Factor Targets 1.0 null PMC6581439__F6 PFOCR Pathway Figure Associations 2024 1.0 null Paraventricular hypothalamic nucleus, parvicellular division, anterior parvicellular part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.24623 ARTN CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.01491 core part of DTg Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.09805 external part of AOD Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.23115 FGFR3_knockdown_174_GSE41035 GEO Signatures of Differentially Expressed Genes for Kinase Perturbations 1.0 1.39885 OPM2 CCLE Cell Line Gene CNV Profiles 1.0 1.72114 GE-53-SM76_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.81281 NR1I3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.1805 Basolateral amygdalar nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.05413 GSE105169,GSE105175_0_v_1_dhx36_human RummaGEO Gene Perturbation Signatures -1.0 null FE-10-KQ78_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.533654 PMC12381255-41389_2025_576_MOESM3_ESM.xlsx-Differentiated_SRCAP-1879-Gene_SRCAP Rummagene Transcription Factor Associations 2026 1.0 null NCI-H1623 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 parvocellular part of r8LRt Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.02069 hsa-miR-4755-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.07142 Shoot tip TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.842 LS513 CCLE Cell Line Gene Expression Profiles 1.0 1.79979 GSE217694_3_v_2_pold1_mouse RummaGEO Gene Perturbation Signatures -1.0 null Perturb_3922_KD_VPS37A/VPS37C_SRP266781 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 HPAC CCLE Cell Line Gene Expression Profiles -1.0 -1.80547 CLOCK-BMAL transcription complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.727 Posterior parietal association areas, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.1954 ZNF410 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 28.401 SBF transcription complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.65 hsa-miR-493 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.809003 Guard cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.995 CAOV3 DepMap CRISPR Gene Dependency 1.0 2.16215 CA-25-LR28_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.609249 hsa-miR-4724-3p TargetScan Predicted Conserved microRNA Targets 1.0 1.26663 Arrector pili muscle TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.82 KDM1A_KD_GDS5055_367_mouse_adipose tissue GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null NCI-H345 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.839544 GSE117730,GSE117732_0_v_2_apobec2_mouse RummaGEO Gene Perturbation Signatures 1.0 null layer 1 of PCx Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.70056 LS123 DepMap CRISPR Gene Dependency 1.0 2.30507 GSE137954_4_v_2_smyd3_mouse RummaGEO Gene Perturbation Signatures -1.0 null retropontine reticular area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.30949 CF-61-EH59_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.26941 Supratrigeminal nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.98288 LAMA2_Deficiency_GDS3371_595_mouse_Hind limb skeletal muscle (4-week old dy3K/dy3K animals) GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null FOS_MCF 10A_hg19_3 ENCODE Transcription Factor Binding Site Profiles 1.0 null AC-97-KP88_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.96896 Phloem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.279 PMC10274772-media-2.xlsx-TFAP2A_motif_in_enhancers-TFAP2A_target_genes_with_TFAP2A_motif_in_their_enhancer_region_n_99_TFAP2A Rummagene Transcription Factor Associations 2026 1.0 null H4K20me1_HeLa-S3_hg19_1 ENCODE Histone Modification Site Profiles 1.0 null HINFP JASPAR Predicted Transcription Factor Targets 1.0 null epidermis BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 1.07371 Superior vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.22558 NCI-H1882 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.91436 Root tip TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.717 BHY CCLE Cell Line Gene CNV Profiles -1.0 -1.39869 PGR JASPAR Predicted Human Transcription Factor Targets 2025 1.0 23.5233 H3K9me3_iPS DF 19.11 Roadmap Epigenomics Histone Modification Site Profiles 1.0 null COLO678 CCLE Cell Line Gene Expression Profiles 1.0 1.44103 Spinal vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.03105 NR3C2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 35.0478 GSE139455_7_v_6_stat3_human RummaGEO Gene Perturbation Signatures -1.0 null medial part of r7B Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.37503 Primary somatosensory area, lower limb, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.77826 NCIH1437 CCLE Cell Line Gene CNV Profiles 1.0 2.83238 hsa-miR-526b TargetScan Predicted Conserved microRNA Targets 1.0 0.159923 Stele TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.179 r2 part of vestibular sensory column Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.45435 Cambium TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.71 Motor nucleus of trigeminal Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.20615 plant form TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.56284 PMC10794847-mmc2.xlsx-PBRM1_KD_up-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 extracellular region LOCATE Predicted Protein Localization Annotations 1.0 null OE-21 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.306 Lhx1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 19.7511 Dux JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 37.1542 CAL 54 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.0436 PITX2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.432 Subparafascicular nucleus, parvicellular part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.19344 SCC9 CCLE Cell Line Gene Expression Profiles 1.0 2.13764 AA-62-HP31_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.280179 T-47 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.482 Perturb_15537_KO_Setd2_SRP220248 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 5.27413 NCI-H929 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.56596 OCIC4P DepMap CRISPR Gene Dependency 1.0 2.38185 hsa-miR-146a TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 FOXO1::ELF1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 29.8579 mantle zone of r7BM Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.37461 FA-88-II68_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.13912 CORL105 CCLE Cell Line Gene Expression Profiles -1.0 -2.46157 SREBF2 JASPAR Predicted Transcription Factor Targets 1.0 null PCI30 DepMap CRISPR Gene Dependency 1.0 3.06398 Hair follicle bulge TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.583 SOX9 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.6579 intermediate stratum of r6BM Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.04744 Ventral anterior-lateral complex of the thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.01785 Fruit capsule TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.862 PMC8002431__F4 PFOCR Pathway Figure Associations 2023 1.0 null NDUFA1 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.01001 TB-06-VB30_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.317423 PCI4B DepMap CRISPR Gene Dependency 1.0 2.87883 GC-42-LL86_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.288981 UMUC10 DepMap CRISPR Gene Dependency 1.0 3.97883 mantle zone of r6BI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.9028 dorsolateral isthmic part of the dorsal raphe nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.05214 corticoid layer of TuStr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.67042 hsa-miR-596 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.843347 HCC1419 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -1.10152 layer 6 of PrS Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.81254 SW 480 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.15848 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 STAT3_deficiency_GDS3106_58_mouse_type II alveolar cells GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null GK3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.41018 superficial stratum of Str Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.51362 placenta HPA Tissue Protein Expression Profiles 1.0 1.22208 GD-82-CS38_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 5.64011 GSE236504,GSE236505_0_v_1_atmin_human RummaGEO Gene Perturbation Signatures -1.0 null FOSL1::JUND JASPAR Predicted Human Transcription Factor Targets 2025 1.0 21.1868 RCOR1 ENCODE Transcription Factor Targets 1.0 null trans-Golgi network membrane COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.873 EF-85-DA07_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.225478 Root hair COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.036 GSE136894_2_v_3_psen1_mouse RummaGEO Gene Perturbation Signatures 1.0 null AA-62-HP31_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.331742 FOS ENCODE Transcription Factor Targets 1.0 null Primary somatosensory area, mouth, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.25159 Perturb_6628_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 GSE234340_12_v_7_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null PMC5028394__F4 PFOCR Pathway Figure Associations 2023 1.0 null PMC8881251-18_2022_4183_MOESM2_ESM.xlsx-ERM_vs_P1-DEGs_ERM_versus_P1_organoids_ETV5 Rummagene Transcription Factor Associations 2026 1.0 null UCSD-242L Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -2.15836 HT1197 CCLE Cell Line Gene Expression Profiles 1.0 1.49917 NU-DUL-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.874757 ZR751 CCLE Cell Line Gene CNV Profiles 1.0 1.40886 H2AFZ ENCODE Transcription Factor Targets 1.0 null H3K4me1_Mobilized CD34 Primary Cells Roadmap Epigenomics Histone Modification Site Profiles 1.0 null r1 part of dorsal parvicellular reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.7742 Placenta TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 Medial amygdalar nucleus, posterodorsal part, sublayer b Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.05413 wc1 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.664 Perturb_15343_KD_PGR_SRP223388 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 10.4989 DOK DepMap CRISPR Gene Dependency 1.0 6.67774 PMC11696763-41598_2024_79298_MOESM7_ESM.csv--Table_S1_Differentially_expressed_genes_including_ZNF560_were_screened_out_between_normal_and_tumor_tissues_ZNF560 Rummagene Transcription Factor Associations 2026 1.0 null TBX21 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 26.5261 AC-30-XU83_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.082 PATU8988T DepMap CRISPR Gene Dependency 1.0 4.13938 terminal paraventricular area of THyA Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.14023 amygdala BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -1.05285 increased circulating aspartate transaminase level IMPC Knockout Mouse Phenotypes 1.0 null YB-54-ET23_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.547684 Psoriasis DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.639 hsa-miR-579 TargetScan Predicted Conserved microRNA Targets 1.0 0.212286 dorsal cortical nucleus of inferior colliculus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.16813 GSE234340_10_v_2_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null isthmic roof plate Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.03828 NCI-H2073 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.14252 ETS2 MotifMap Predicted Transcription Factor Targets 1.0 null SLR23 CCLE Cell Line Gene Expression Profiles -1.0 -1.99345 PTEN_01_303 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.33969 TUHR10TKB CCLE Cell Line Gene Expression Profiles -1.0 -1.5583 SAFB2_02_150 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.5025 GSE254649_2_v_1_cstf2_human RummaGEO Gene Perturbation Signatures -1.0 null r1 part of principal trigeminal sensory nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.25954 MDST8 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.927744 intermediate stratum of r7BM Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.6827 C3A Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.873298 ETV5::FOXO1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 25.7023 Psoriasis DisGeNET Gene-Disease Associations 1.0 null Floral primordium TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.203 KMS-11 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.7743 U2AF2_02_170 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 6.20945 superficial stratum of CoPV Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.33431 AE-51-ZO26_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.69291 PMC10794847-mmc6.xlsx-PIAS1_KD_up-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 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-HAND1_cust_HAND1 Rummagene Transcription Factor Associations 2026 1.0 null Papilloma cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.756 r1 part of trigeminal sensory column Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.68705 PMC11046918-12967_2024_5211_MOESM5_ESM.xlsx-C_FUS-DDIT3-eGFP_vs_eGFP-Table_S3_Regulated_genes_between_scaffold-cultured_HT1080_FUS_DDIT3-eGFP_cells_and_control_cell_lines_DDIT3 Rummagene Transcription Factor Associations 2026 1.0 null HCC2279 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.968978 Bone inflammation disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.068 ZR75B Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -0.759568 PANC 08.13 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.11873 Tic complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.933 intermediate stratum of m1Lim Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.11592 Anterior cingulate area, dorsal part, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.19746 SNU-601 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.15848 superficial stratum of r1Tr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.25954 seed TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.695763 GSE114013,GSE114014_1_v_4_itraconazole_human RummaGEO Drug Perturbation Signatures 1.0 null AB-18-YN11_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 6.02079 PMC11067031-pnas.2317690121.sd05.xlsx-Sheet1-Differentially_expressed_genes_between_PML_RARA_GFP_vs_Empty_vector_GFP_human_hematopoietic_cells_at_day_7_by_single_cell_RNA-seq_RARA Rummagene Transcription Factor Associations 2026 1.0 null Perturb_10223_KD_FOXC1_SRP068208 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 -20.0 GSE234340_10_v_7_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null Seed TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.939 KPL1 CCLE Cell Line Gene Expression Profiles -1.0 -1.51084 TCF7 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 43.7034 DICER1_KO_GDS4504_585_mouse_bone marrow granulocyte-macrophage progenitors GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null PMC4865098__F7 PFOCR Pathway Figure Associations 2024 1.0 null Interstitial nucleus of Cajal Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.04861 USF1 ENCODE Transcription Factor Targets 1.0 null GATA2 JASPAR Predicted Transcription Factor Targets 1.0 null GSE145628,GSE145629_1_v_0_myrf_human RummaGEO Gene Perturbation Signatures -1.0 null GSE160817_3_v_6_slamf6_human RummaGEO Gene Perturbation Signatures 1.0 null tissues, cell types and enzyme sources TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 NCI-H1770 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.06504 WM-266-4 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.989059 hsa-miR-31 TargetScan Predicted Conserved microRNA Targets 1.0 0.404082 Cry-Per complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.998 PMC5428929__F6 PFOCR Pathway Figure Associations 2023 1.0 null PMC8002431__F4 PFOCR Pathway Figure Associations 2024 1.0 null BB-86-BE39_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.652142 5637 COSMIC Cell Line Gene Mutation Profiles 1.0 null hsa-miR-4687-3p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.20993 r7 part of paragigantocellular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.31074 RERF-GC-1B Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.98537 GSE183335,GSE183351_1_v_0_lin28b_human RummaGEO Gene Perturbation Signatures -1.0 null Apical meristem TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.699 HCC1937 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.04481 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-JUNB_JUNB Rummagene Transcription Factor Associations 2026 1.0 null H3K4me1_K562_hg19_1 ENCODE Histone Modification Site Profiles 1.0 null 496100364_TCx_possible Alzheimer's disease_TBI_90-94_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.44601 PMC7430825__F8 PFOCR Pathway Figure Associations 2023 1.0 null YY1 JASPAR Predicted Transcription Factor Targets 1.0 null BT-474 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.861424 DU4475 CCLE Cell Line Gene CNV Profiles 1.0 1.32772 GSE63857_3_v_2_tamoxifen_mouse RummaGEO Drug Perturbation Signatures -1.0 null UC-58-DM11_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.1055 PD-26-DC63_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.987456 HCC193 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.80579 SNU-1040 COSMIC Cell Line Gene Mutation Profiles 1.0 null SARS-CoV MA15_Day1-PFU-10^4_None_GSE50000 GEO Signatures of Differentially Expressed Genes for Viral Infections 1.0 1.39309 central layers of TG Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.26682 RARA::RXRA JASPAR Predicted Human Transcription Factor Targets 2025 1.0 34.087 PMC3614443__F1 PFOCR Pathway Figure Associations 2023 1.0 null 253JBV CCLE Cell Line Gene Expression Profiles -1.0 -1.91648 HCC2218 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.01188 RD-50-EO07_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.97009 GSE136894_1_v_0_psen1_mouse RummaGEO Gene Perturbation Signatures 1.0 null H3K4me1_H1 BMP4 Derived Trophoblast Cultured Cells Roadmap Epigenomics Histone Modification Site Profiles 1.0 null hypocotyl TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.712139 r7 part of the basointermediate reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.3622 plant embryo TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.70968 GATA1_02_60 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.93074 UBTF_02_56 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 3.93074 Perturb_6296_KD_NIPBL_SRP221332 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 17.1451 GSE234340_9_v_2_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null PC-62-AQ92_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.391987 SW1417 CCLE Cell Line Gene Expression Profiles 1.0 1.40751 FMR1_KD_GDS4759_333_mouse_E16 primary cortical neuron cultures GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null Chloroplast membrane COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.884 DF-93-BT88_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.64038 PRDM1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 28.3672 NCI-H1781 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.28574 GSE221020,GSE221023_2_v_1_pten_mouse RummaGEO Gene Perturbation Signatures 1.0 null Antler TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.694 pyrazinamide_mus musculus_gpl6246_gse48027 GEO Signatures of Differentially Expressed Genes for Small Molecules -1.0 null Internal female genital organ TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 JUND_K562_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null BCL6 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 31.8999 PMC12629827-mmc8.xlsx-DDR2_KD-symbol_AR Rummagene Transcription Factor Associations 2026 1.0 null Perturb_18393_KO_923large_SRP286259 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -8.71989 ND-68-CU31_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.848612 snoutepidermis BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 2.09859 BCL6B JASPAR Predicted Human Transcription Factor Targets 2025 1.0 61.5844 HCC60 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.41955 GSE213219_2_v_3_st3gal3_mouse RummaGEO Gene Perturbation Signatures 1.0 null Retrosplenial area, ventral part, layer 2 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.38257 SIRT1_KO_GDS3666_295_mouse_liver GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null MA-58-RR04_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.71602 r6 part of paragigantocellular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.41714 EE-01-FB85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.943301 Subthalamic nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.16335 GSE135030_11_v_7_fludarabine_human RummaGEO Drug Perturbation Signatures 1.0 null DB-56-XL71_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.19353 GATA1_MEL cell line_mm9_2 ENCODE Transcription Factor Binding Site Profiles 1.0 null GSE131649_2_v_9_hemin_human RummaGEO Drug Perturbation Signatures 1.0 null GABPA JASPAR Predicted Human Transcription Factor Targets 2025 1.0 33.1654 TE14 CCLE Cell Line Gene Expression Profiles -1.0 -1.54505 Medial amygdalar nucleus, posterodorsal part, sublayer c Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.98288 496100349_HIP_no dementia_no TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.15606 JD-81-YX02_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.253077 whole plant TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.341126 Swr1 complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.1 layer 6a of PrS Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.81254 mRNA_GATA3_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null embryoday7.5 BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 0.838764 SF126 CCLE Cell Line Gene CNV Profiles -1.0 -2.78845 Perturb_9833_KD_TBX3_SRP122892 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 2.54759 Prdm4 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 34.934 MYC ENCODE Transcription Factor Targets 1.0 null OCIMY7 DepMap CRISPR Gene Dependency 1.0 4.83488 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-ELK3_ELK3 Rummagene Transcription Factor Associations 2026 1.0 null intermediate stratum of r7BI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.35978 Folium-tuber vermis (VII), granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.63293 Runx1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 23.859 Spinal nucleus of the trigeminal, caudal part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.38315 DU 145 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.902421 hsa-miR-507 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.13535 PMC11995938-74_129_TableS2.pdf-2-GTF2B_GTF2B Rummagene Transcription Factor Associations 2026 1.0 null DU-145 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 Internode TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.156 496100459_PCx_no dementia_no TBI_89_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 5.1819 AD-54-FG24_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.497988 r6 part of gigantocellular reticular area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.48366 abnormal coat/hair pigmentation MGI Mouse Phenotype Associations 2023 1.0 null Copula pyramidis, granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.1023 CDX1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 21.0936 ST486 DepMap CRISPR Gene Dependency 1.0 2.73113 GSE158502,GSE158506_3_v_0_fat1_mouse RummaGEO Gene Perturbation Signatures -1.0 null EKVX Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.52447 EBF1 ENCODE Transcription Factor Targets 1.0 null Perturb_3924_KD_VPS37B/VPS37C_SRP266781 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 3.02728 hsa-miR-4254 TargetScan Predicted Conserved microRNA Targets 1.0 0.219115 AE-13-CX28_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 6.74817 ED-71-GA72_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.86063 PMC6231613__F3 PFOCR Pathway Figure Associations 2023 1.0 null MEWO COSMIC Cell Line Gene Mutation Profiles 1.0 null DA-35-DU85_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.60157 ETV2::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.8339 JUND ENCODE Transcription Factor Targets 1.0 null Ventral posterior complex of the thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.46361 hsa-miR-4529-5p TargetScan Predicted Conserved microRNA Targets 1.0 1.26663 PF-59-CY33_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.7002 eGFP-GATA2_K562_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null GSE144500_7_v_6_ventx_human RummaGEO Gene Perturbation Signatures -1.0 null LB771HNC DepMap CRISPR Gene Dependency 1.0 10.7971 Lef1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 17.1341 BICR78 DepMap CRISPR Gene Dependency 1.0 10.4826 SUM159PT Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -0.699154 H3K27ac_H1 BMP4 Derived Trophoblast Cultured Cells Roadmap Epigenomics Histone Modification Site Profiles 1.0 null BC-00-YH62_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.812978 SB-94-ZA83_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.354972 GSE197686,GSE197688_2_v_0_arid1a_mouse RummaGEO Gene Perturbation Signatures -1.0 null 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 2.06301 AC-30-XU83_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 7.49323 Ventral group of the dorsal thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.17534 AC-30-XU83_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 5.34143 Anterodorsal preoptic nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.17476 IB-33-TE51_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.479932 BA-68-FJ41_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 6.89039 DC-23-UM36_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.252537 lateral subhabenular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.51547 GSE234340_1_v_2_muc2_mouse RummaGEO Gene Perturbation Signatures -1.0 null MSTN_KO_GDS3637_439_mouse_muscle GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null NCIN87 CCLE Cell Line Gene Expression Profiles 1.0 1.53962 Declive (VI), granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.647 496100367_FWM_no dementia_TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 6.59313 BD-38-QC39_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.96377 BB-86-BE39_0.1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.749271 RCOR1_K562_hg19_2 ENCODE Transcription Factor Binding Site Profiles 1.0 null PMC10164164-41598_2023_34435_MOESM2_ESM.xlsx-FSK_CIC_KO_cp_to_CTL-gene_name_CIC Rummagene Transcription Factor Associations 2026 1.0 null KHM1B CCLE Cell Line Gene CNV Profiles 1.0 2.16656 Posterior complex of the thalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.1147 KC-48-OO62_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 4.94097 AC-36-TL21_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.22543 FOXP1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 16.1465 Retrosplenial area, ventral part, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.22573 GSE207728,GSE207808_2_v_1_c646_human RummaGEO Drug Perturbation Signatures 1.0 null EKC/KEOPS complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.024 DB-24-CQ08_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.388793 FLI1::FOXI1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 27.8185 GD-69-KC91_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.273936 Pyramus (VIII), granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.26083 r3 pontine raphe nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.6867 Spikelet TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.36 HCA1 DepMap CRISPR Gene Dependency 1.0 2.11746 BE-04-AN21_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.29155 CCDC34 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 3.49689 AB-30-CR11_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.27562 Autoimmune disease of skin and connective tissue DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.595 Vegetative stage TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.985 PMC4550785__F3 PFOCR Pathway Figure Associations 2023 1.0 null CEBPA JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.051 HNF4G JASPAR Predicted Human Transcription Factor Targets 2025 1.0 32.3891 PMC10042887-41419_2023_5742_MOESM4_ESM.xlsx-Table_S4-Table_S4_Overlap_genes_of_HOXB3_vs_HOXB3-_and_APC-KO_vs_APC-intact_HOXB3 Rummagene Transcription Factor Associations 2026 1.0 null HS 69ST Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.14019 AMO1 CCLE Cell Line Gene CNV Profiles 1.0 1.58935 KYSE270 CCLE Cell Line Gene Expression Profiles -1.0 -2.11647 LN-18 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.26767 PMC10243915-uxad037_suppl_supplementary_table_s1b-table_s3b.pdf-430-ZBTB32_ZBTB32 Rummagene Transcription Factor Associations 2026 1.0 null GATA1 ENCODE Transcription Factor Targets 1.0 null FOXA2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.0428 mantle zone of TG Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.05901 BB-44-SX65_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.334139 NCI-N417 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.41955 BATF JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.253 VA-92-QP54_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.548886 Chloroplast envelope COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.87 NCIH3255 CCLE Cell Line Gene Expression Profiles -1.0 -2.18254 RERFLCAD2 CCLE Cell Line Gene Expression Profiles 1.0 1.39477 NCIH1623 CCLE Cell Line Gene CNV Profiles 1.0 2.2939 mantle zone of PHyB-D Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.01358 NCI-H345 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 Perturb_6625_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 mantle zone of AStr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.1458 SARS-CoV MA15_Day2-PFU-10^5_None_GSE50000 GEO Signatures of Differentially Expressed Genes for Viral Infections 1.0 2.35078 Nfatc2 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 29.4088 NCI-H1568 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.21495 Central amygdalar nucleus, medial part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.56356 JF-62-LU77_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.42469 Leaf primordium TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.513 Perturb_16442_KD_IL13RA2_SRP314695 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 -15.0353 FOXO1::ELK1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 30.8363 spleen GTEx Tissue Gene Expression Profiles -1.0 -1.03873 AMO-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.21258 mantle zone of TSPaA Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.08271 periventricular stratum of m2AL Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.10697 NCI-H2804 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.00135 hsa-miR-671-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.921135 GSE139455_2_v_3_stat3_human RummaGEO Gene Perturbation Signatures 1.0 null colon GTEx Tissue Gene Expression Profiles -1.0 -0.925443 PMC7397849-supp_gad.338681.120_Supplemental_Table_S1.xlsx-S1L_Shared_genes_3way_overlap-Suppl_Table_S1L_Shared_genes_between_YAP1-MAMLD1_YAP1-FAM118B_YAP1-TFE3_in_vitro_human_samples_TFE3 Rummagene Transcription Factor Associations 2026 1.0 null hsa-miR-3188 TargetScan Predicted Conserved microRNA Targets 1.0 1.11641 ZBTB26 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.4917 HT1376 CCLE Cell Line Gene Expression Profiles 1.0 2.03977 QE-18-WG07_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.395206 ES2 CCLE Cell Line Gene Expression Profiles -1.0 -1.92613 PMC11067031-pnas.2317690121.sd06.xlsx-gene_list_14_txt-Differentially_expressed_genes_between_PML_RARA_GFP_vs_C88A_PML_RARA_GFP_human_hematopoietic_cells_at_day_7_by_single_cell_RNA-seq_RARA Rummagene Transcription Factor Associations 2026 1.0 null superficial stratum of PSPa Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.41743 USF1_K562_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null EBC1 CCLE Cell Line Gene CNV Profiles -1.0 -1.66673 GSE128730_3_v_6_neratinib_human RummaGEO Drug Perturbation Signatures -1.0 null tectal gray formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.06361 FE-69-HJ93_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.323309 Perturb_13585_KD_Tardbp_SRP314028 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations 1.0 6.04758 ZNF8 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 42.5691 Perturb_18388_KO_Izumo1r_SRP354764 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -3.47774 esophagus HPA Tissue Protein Expression Profiles 1.0 0.872387 EP300_K562_hg19_2 ENCODE Transcription Factor Binding Site Profiles 1.0 null Folium-tuber vermis (VII), molecular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.15347 EKVX CCLE Cell Line Gene CNV Profiles 1.0 1.49311 Perturb_6627_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 ZNF214 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 21.7224 hsa-miR-1237 TargetScan Predicted Nonconserved microRNA Targets 1.0 0.809003 hsa-miR-4492 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.0155 mt3 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.97 HSF2 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.1271 MM.1S Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.958663 H3K4me1_mammary epithelial cell_hg19_1 ENCODE Histone Modification Site Profiles 1.0 null FA-88-II68_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.851168 RERFGC1B CCLE Cell Line Gene Expression Profiles 1.0 1.65337 HCC1395 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.0436 Pith TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.533 TYK-NU.CP-R Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.967766 ZNF384_02_27 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 2.9542 Central amygdalar nucleus, capsular part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.16335 GSE188870,GSE188871_4_v_2_kat7_mouse RummaGEO Gene Perturbation Signatures -1.0 null PMC11997329-mmc1.pdf-1-HMGA2_HMGA2 Rummagene Transcription Factor Associations 2026 1.0 null Inflorescence stalk TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.588 Upper epidermis TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.064 MEG01 CCLE Cell Line Gene Expression Profiles 1.0 3.40857 NCI-H1437 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 2.27639 YMB1 CCLE Cell Line Gene CNV Profiles 1.0 1.72165 QB-88-PG52_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.735954 496100654_HIP_no dementia_no TBI_86_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.09103 PMC4408840__F1 PFOCR Pathway Figure Associations 2023 1.0 null Primary immunodeficiency disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.33 alar part of terminal hypothalamus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.06831 GSE232631_5_v_1_brca2_mouse RummaGEO Gene Perturbation Signatures 1.0 null Chlorenchyma TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.017 anterior pretectal nucleus, ventral superficial part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.74904 SNU81 DepMap CRISPR Gene Dependency 1.0 3.83848 AKAP8L CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.15527 TE10 CCLE Cell Line Gene CNV Profiles -1.0 -1.40742 JD-62-HR05_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.768646 Pyramus (VIII), molecular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.4548 Autoimmune disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.348 BB-79-AG41_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.23721 SPIB JASPAR Predicted Human Transcription Factor Targets 2025 1.0 47.1536 Bed nuclei of the stria terminalis, anterior division, dorsomedial nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.12527 GSE226249_5_v_7_pirfenidone_human RummaGEO Drug Perturbation Signatures 1.0 null Plant crown TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.7 Dermal papilla TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.781 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-MSX2_MSX2 Rummagene Transcription Factor Associations 2026 1.0 null GSE142588_2_v_0_cinobufagin_human RummaGEO Drug Perturbation Signatures -1.0 null Gustatory areas, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.13348 HT55 CCLE Cell Line Gene Expression Profiles 1.0 1.69454 Endocytic vesicle lumen COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.568 basomedial amygdaloid nucleus, posterior part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.4953 Autoimmune disease of musculoskeletal system DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.457 FA-16-HR75_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.349502 hsa-miR-362-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.965816 Primary motor area, Layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.19912 BA-84-TD72_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.602652 PMC7217064-IJC-146-3354-s004.xlsx-Table_S5-Supplementary_Table_S5_Genes_significantly_upregulated_in_OC2-transfected_AGS_cell_compared_to_control_ONECUT2 Rummagene Transcription Factor Associations 2026 1.0 null G140 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.11873 PMC7481169-277_2020_4194_MOESM7_ESM.xlsx-RUNX1_R174L-Unnamed_1_RUNX1 Rummagene Transcription Factor Associations 2026 1.0 null tongueepidermis BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 1.23083 PMC10181312__F2 PFOCR Pathway Figure Associations 2024 1.0 null GSE140936,GSE140938_0_v_1_slfn11_human RummaGEO Gene Perturbation Signatures -1.0 null NCIH23 CCLE Cell Line Gene CNV Profiles 1.0 1.41705 EBF1_GM12878_hg19_3 ENCODE Transcription Factor Binding Site Profiles 1.0 null PMC8104016-hcg-12-e002353-s006.xlsx-mTHP-1-LPS_Prom-Prom_Prom-GWAS-RefSeq_Name_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null AE-88-WQ63_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.72657 SW1271 CCLE Cell Line Gene CNV Profiles -1.0 -1.51486 HCC1576 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.06628 hsa-miR-4270 TargetScan Predicted Conserved microRNA Targets 1.0 0.670641 AA-68-OJ16_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.19052 PCI15A DepMap CRISPR Gene Dependency 1.0 2.36863 GSE107956,GSE107957_0_v_1_ythdf2_human RummaGEO Gene Perturbation Signatures -1.0 null GSE118077_7_v_8_sprr5_human RummaGEO Gene Perturbation Signatures -1.0 null olfactorybulb BioGPS Mouse Cell Type and Tissue Gene Expression Profiles -1.0 -1.12704 lateral part of the lateral habenular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.16442 SNB75 DepMap CRISPR Gene Dependency 1.0 2.22942 HCC3153 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles 1.0 0.8928 FXR MotifMap Predicted Transcription Factor Targets 1.0 null BA-39-HG26_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.713347 MAFA MotifMap Predicted Transcription Factor Targets 1.0 null JF-30-FW92_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.638433 Hair TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.362 Small proline-rich protein/late cornified envelope protein InterPro Predicted Protein Domain Annotations 1.0 null 496100460_TCx_possible Alzheimer's disease_TBI_100+_F Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 5.11862 496100549_FWM_no dementia_TBI_87_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.05692 r6 part of basointermediate reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.41793 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-HAND1_pos_targets-ID_HAND1 Rummagene Transcription Factor Associations 2026 1.0 null Skin disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.407 TOLEDO Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.35459 SNAI1_OE_GDS4596_344_human_SW480 - Colorectal cancer cell line GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null periventricular stratum of isBI Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.35714 GSE167324_1_v_0_eif4e_mouse RummaGEO Gene Perturbation Signatures 1.0 null PMC10970410__F8 PFOCR Pathway Figure Associations 2024 1.0 null GSE118430_0_v_1_xbp1_mouse RummaGEO Gene Perturbation Signatures -1.0 null BATF3 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.5942 GSE188721_3_v_4_mesp1_human RummaGEO Gene Perturbation Signatures 1.0 null KMS11 CCLE Cell Line Gene CNV Profiles 1.0 1.59828 BT549 Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles -1.0 -0.979827 SUM 149PT Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.26892 Plastid inner membrane COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.928 Primary somatosensory area, mouth, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 4.3686 GSE193993_4_v_2_sstr2_human RummaGEO Gene Perturbation Signatures 1.0 null HCC2218 CCLE Cell Line Gene CNV Profiles 1.0 1.83922 PMC11437185-41467_2024_50986_MOESM4_ESM.xlsx-MECOM-IP-MS-Gene_names_MECOM Rummagene Transcription Factor Associations 2026 1.0 null KARPAS299 CCLE Cell Line Gene CNV Profiles -1.0 -2.69447 ventral entopeduncular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.41743 superficial stratum of r3Ve Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.19344 SEPTIN7 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas -1.0 -2.22873 GSE209938_0_v_1_metformin_human RummaGEO Drug Perturbation Signatures 1.0 null Panicle TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.404 hsa-miR-329 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.13535 mRNA_MEF2C_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null Keratin filament COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.604 496100514_FWM_no dementia_TBI_95-99_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.70689 NCI-H810 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.06504 AD-86-OB87_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.890871 AB-71-CI37_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.336121 Nobox JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 20.0263 lateral anterior hypothalamic nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.46361 HCC1937 CCLE Cell Line Gene CNV Profiles -1.0 -2.13299 GSE193999,GSE194000_3_v_2_atf3_mouse RummaGEO Gene Perturbation Signatures 1.0 null Suprachiasmatic nucleus TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.918 Entorhinal area, medial part, ventral zone, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.64336 tfap2c_18353300_e16dot5_skin_lof_mouse_gpl1261_gds3171 GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations 1.0 0.138876 Primary somatosensory area, barrel field, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.40895 H3K9me3_G1E-ER4_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null PMC6001512__F1 PFOCR Pathway Figure Associations 2023 1.0 null DC-47-KV62_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.10824 LD-69-ZV56_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.51357 ventral posterolateral nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.98288 mRNA_EOMES_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null mRNA_DPPA5A_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null KMS28BM CCLE Cell Line Gene CNV Profiles 1.0 1.75866 posterior (ventral) nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -3.06261 mRNA_SUZ12_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells 1.0 null NCI-H187 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.31355 GSE182179_0_v_4_kdsr_human RummaGEO Gene Perturbation Signatures 1.0 null mp14 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.82 Perturb_6630_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0 hsa-miR-4498 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.2992 GSE111061_1_v_0_tofacitinib_human RummaGEO Drug Perturbation Signatures -1.0 null r3 part of vestibular sensory column Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.19344 AD-18-XC14_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.406123 r4 alar plate Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.05413 Arthritis DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.049 NOS-1 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 PMC11772884-41421_2024_747_MOESM6_ESM.xlsx-7_DEGs_USF2-KO_vs_control-Gene_Symbol_USF2 Rummagene Transcription Factor Associations 2026 1.0 null AD-00-WA10_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.62701 HCC1588 CCLE Cell Line Gene Expression Profiles 1.0 1.5773 SW1116 CCLE Cell Line Gene CNV Profiles -1.0 -1.32546 Leukemia, Acute Megakaryocytic_Megakaryocyte_GSE2433 GEO Signatures of Differentially Expressed Genes for Diseases 1.0 1.42031 163 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.719 DF-84-RT50_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.361586 DA-40-HO94_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.341982 Pyramus (VIII) Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.34843 GSE188870,GSE188871_4_v_3_kat7_mouse RummaGEO Gene Perturbation Signatures -1.0 null GSE168401_2_v_0_harmine_human RummaGEO Drug Perturbation Signatures -1.0 null WM983B CCLE Cell Line Gene CNV Profiles -1.0 -1.33034 CE-18-AP85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.273857 abnormal coat/hair pigmentation IMPC Knockout Mouse Phenotypes 1.0 null KLC3 CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.84727 Leaf lamina TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.682 MX-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.98537 dorsal part of PHyB Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.01358 KMS-28BM Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.33557 ITK_knockout_242_GSE12465 GEO Signatures of Differentially Expressed Genes for Kinase Perturbations -1.0 -1.69379 ZD-85-ND87_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.05013 Disease DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 1.0 1.327 GSE138938_1_v_3_foxp2_human RummaGEO Gene Perturbation Signatures 1.0 null clathrin-sculpted vesicle COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.902 GSE246716_0_v_1_trappc1_mouse RummaGEO Gene Perturbation Signatures 1.0 null digits BioGPS Mouse Cell Type and Tissue Gene Expression Profiles 1.0 1.46784 PB-18-HD85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.211643 NCI-H2009 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.49557 CC-31-VS31_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.240755 BA-95-YU85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.0724 OVKATE Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.958663 MF-37-KQ09_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.977257 KMS18 DepMap CRISPR Gene Dependency 1.0 2.29222 AC-49-NG46_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.243983 SNU8 CCLE Cell Line Gene Expression Profiles -1.0 -1.53875 PMC6231613__F3 PFOCR Pathway Figure Associations 2024 1.0 null NCIH358 CCLE Cell Line Gene Expression Profiles -1.0 -2.93125 GSE140936,GSE140938_2_v_1_slfn11_human RummaGEO Gene Perturbation Signatures -1.0 null PAX3_Knock-in_GDS3331_598_mouse_Palatal shelves (E14.5 embryos - palate) GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null GF-37-MB64_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.00928 GSE160817_4_v_9_slamf6_human RummaGEO Gene Perturbation Signatures -1.0 null Kdm1a_KD_GDS5055_274_mouse_3T3-L1 preadipocytes - 24h GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null H3K27me3_Stomach Mucosa Roadmap Epigenomics Histone Modification Site Profiles 1.0 null Seedling TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.978 oncostatin-M receptor complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.648 AF-41-QY60_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.782897 AD-06-OB47_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.00077 MOLT13 CCLE Cell Line Gene Expression Profiles 1.0 1.75451 hsa-miR-3185 TargetScan Predicted Conserved microRNA Targets 1.0 0.303626 Embryonic structure TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 537 MEL Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.0436 Crus 2, granular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.01402 PFKL_OE_GDS1980_203_mouse_dermal fibroblasts GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null Lateral vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.41743 hsa-miR-1304 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.7397 Tassel TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.806 SARM_KO_GDS4842_412_mouse_brain GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null NKX2-4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 22.0313 NR3C1 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 35.1526 Cell envelope COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.082 AF-72-PP21_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.61636 G61 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.26767 Awn TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.663 mRNA_DNMT3B_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null r2 part of dorsal parvicellular reticular formation Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -2.28255 PMC7475247__F1 PFOCR Pathway Figure Associations 2023 1.0 null Central amygdalar nucleus, lateral part Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.68705 MIR140_Silencing_GDS3462_574_mouse_C3H10T1/2 fibroblast cell line GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null GSE178255_1_v_7_tlr4_mouse RummaGEO Gene Perturbation Signatures 1.0 null NCIH1385 CCLE Cell Line Gene CNV Profiles 1.0 1.35342 GSE144919,GSE145177_1_v_0_dazl_mouse RummaGEO Gene Perturbation Signatures -1.0 null superficial stratum of m1AL Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.11471 Perturb_18392_KO_923large_SRP286259 PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations -1.0 -12.3089 GSE118077_7_v_2_sprr5_human RummaGEO Gene Perturbation Signatures -1.0 null PMC6581439__F6 PFOCR Pathway Figure Associations 2023 1.0 null PMC4833939-13072_2016_65_MOESM9_ESM.xls-PU_1_KD_SAHA_SigGenes_txt-gene_AR Rummagene Transcription Factor Associations 2026 1.0 null ZNF184 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 22.1307 HT144 DepMap CRISPR Gene Dependency 1.0 2.06234 GSE193993_4_v_3_sstr2_human RummaGEO Gene Perturbation Signatures 1.0 null PMC9380331__F7 PFOCR Pathway Figure Associations 2024 1.0 null NB1 CCLE Cell Line Gene CNV Profiles 1.0 1.52617 hsa-miR-762 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 Hair shaft TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.627 496100371_TCx_no dementia_TBI_78_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 4.92829 PMC7581777-41419_2020_3029_MOESM6_ESM.xlsx-MNX1_ChIP-Symbol_MNX1 Rummagene Transcription Factor Associations 2026 1.0 null LS1034 CCLE Cell Line Gene Expression Profiles 1.0 1.36193 roof plate of p2 (epithalamic roofplate) Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.65383 MOLP8 CCLE Cell Line Gene CNV Profiles 1.0 1.33032 PD-60-FM93_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.377 NCI-H1437 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 DA-35-DU85_1uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 8.18062 BATF::JUN JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.3653 Perturb_3921_KD_VPS37A/VPS37B/VPS37C_SRP266781 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 17.8297 LN443 CCLE Cell Line Gene CNV Profiles -1.0 -1.41743 intermediate stratum of r1Tr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.7742 Hand1::Tcf3 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 22.5862 PANC 04.03 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 0.98537 Vascular bundle TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.153 TP53_01_37 KnockTF Gene Expression Profiles with Transcription Factor Perturbations -1.0 -0.60895 mRNA_TCEA3_19796622 ESCAPE Omics Signatures of Genes and Proteins for Stem Cells -1.0 null adrenal gland HPA Tissue Protein Expression Profiles 1.0 0.872387 496100531_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 2.07833 TE-1 COSMIC Cell Line Gene CNV Profiles 1.0 2.283 Perturb_3919_KD_VPS37A_SRP266781 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 8.69378 ChaGo-K-1 cell TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.812 medial trapezoid nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.71849 KMS-28PE Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.28574 hsa-miR-3591-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.07142 BCPAP CCLE Cell Line Gene CNV Profiles -1.0 -1.91428 Leaf epidermis TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.563 mantle zone of TPaA Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.14023 HUPT4 CCLE Cell Line Gene CNV Profiles -1.0 -1.79015 hsa-miR-4732-3p TargetScan Predicted Nonconserved microRNA Targets 1.0 1.7397 VASN CM4AI KOLF21J CRISPRi Gene Perturbation Atlas 1.0 2.60564 ventral nuclei Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.90432 GARP complex COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.527 RPMI-7951 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.927744 IB-14-YP50_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.489335 KDM1A_KD_GDS5055_457_mouse_adipose tissue GEO Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 null ID-90-NM43_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.511334 ZSCAN4 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 45.415 EZH2 ENCODE Transcription Factor Targets 1.0 null BICR18 CCLE Cell Line Gene CNV Profiles -1.0 -1.33138 DE-98-FC24_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.08236 Recycling endosome membrane COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 0.968 TEAD4_K562_hg19_2 ENCODE Transcription Factor Binding Site Profiles 1.0 null PMC8370976-41467_2021_24932_MOESM6_ESM.xlsx-Annotation-Supplementary_Data_4_GO_and_metascape_analysis_of_the_genes_downregulated_in_U87_cells_upon_ZNF768_knockdown_ZNF768 Rummagene Transcription Factor Associations 2026 1.0 null Final leaf TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.481 Eiii TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.505 Alx1 JASPAR Predicted Mouse Transcription Factor Targets 2025 1.0 18.2896 496100368_PCx_probable Alzheimer's disease_no TBI_88_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 3.54306 H3K27me3_HepG2_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null PMC8881251-18_2022_4183_MOESM3_ESM.xlsx-ERM_vs_P4-DEGs_ERM_versus_P4_organoids_ETV5 Rummagene Transcription Factor Associations 2026 1.0 null lateral part of preisthmic periaqueductal gray Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.10656 hsa-miR-4516 TargetScan Predicted Conserved microRNA Targets 1.0 0.598666 SW1271 DepMap CRISPR Gene Dependency 1.0 2.65901 GSE210885_2_v_4_klf4_mouse RummaGEO Gene Perturbation Signatures 1.0 null LE-60-VC29_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.537457 SKLMS1 CCLE Cell Line Gene CNV Profiles -1.0 -2.09855 EP300 ENCODE Transcription Factor Targets 1.0 null SNU349 CCLE Cell Line Gene Expression Profiles -1.0 -1.77045 GSE222758_0_v_2_clofazimine_human RummaGEO Drug Perturbation Signatures 1.0 null BB-78-LT85_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.647351 Declive (VI) Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.72626 GSE201270,GSE201272_0_v_1_mybl2_human RummaGEO Gene Perturbation Signatures -1.0 null Reproductive system TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 1.0 1.091 PB-09-OE00_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 3.25898 PMC8104016-hcg-12-e002353-s006.xlsx-mTHP-1-LPS_Prom-Distal-RefSeq_Name_IRF6 Rummagene Transcription Factor Associations 2026 1.0 null MSTN_DEPLETION_GDS3637_94_mouse_mature skeletal muscle GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null USF1_C2C12_mm9_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null ZD-18-MI26_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.624786 TAF7L_KO_GDS2857_556_mouse_ES cells GEO Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 null H3K27me3_bronchial epithelial cell_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null Stratum granulosum TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.098 NCIH226 CCLE Cell Line Gene Expression Profiles 1.0 1.44371 PU.1 MotifMap Predicted Transcription Factor Targets 1.0 null Orbital area, ventrolateral part, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.04938 Perturb_10123_KD_EGR1_SRP009615 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations -1.0 -2.8934 Hair follicle inner root sheath TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.529 HCC1187 DepMap CRISPR Gene Dependency 1.0 2.41945 JIMT-1 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.34443 polymorph layer of TuStr Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.81254 GSE118077_1_v_8_sprr5_human RummaGEO Gene Perturbation Signatures -1.0 null AB-09-EA37_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.812324 KC-32-GO33_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.80451 cellular_component LOCATE Predicted Protein Localization Annotations 1.0 null AR-27623747-22RV1-MOUSE-PROSTATE-CARCINOMA ChEA Transcription Factor Targets 2022 1.0 null preopto-hypothalamic area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.32626 LB-65-SM65_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.230771 CHEK1_knockdown_136_GSE31534 GEO Signatures of Differentially Expressed Genes for Kinase Perturbations 1.0 1.37811 SW 1116 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -1.41764 hsa-miR-1253 TargetScan Predicted Conserved microRNA Targets 1.0 0.348832 mbl2 TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.773 ESRRB JASPAR Predicted Human Transcription Factor Targets 2025 1.0 20.9105 seedling TISSUES Text-mining Tissue Protein Expression Evidence Scores 1.0 0.67821 SF268 DepMap CRISPR Gene Dependency 1.0 4.01887 Retrosplenial area, dorsal part, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.41834 AC-75-CE67_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.32294 PMC3367986__F2 PFOCR Pathway Figure Associations 2024 1.0 null GSE153064,GSE153065_1_v_0_hdac3_mouse RummaGEO Gene Perturbation Signatures -1.0 null FOS::JUNB JASPAR Predicted Human Transcription Factor Targets 2025 1.0 24.5654 SKMEL31 CCLE Cell Line Gene CNV Profiles -1.0 -1.9069 496100417_HIP_probable Alzheimer's disease_TBI_88_M Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles 1.0 2.0841 PMC4091318__F5 PFOCR Pathway Figure Associations 2023 1.0 null RBM22_02_168 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 4.47249 magnocellular diagonal band nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.00422 hsa-miR-4494 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.40969 TBL1XR1_K562_hg19_2 ENCODE Transcription Factor Binding Site Profiles 1.0 null NFKB1 JASPAR Predicted Transcription Factor Targets 1.0 null Sto TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.021 hsa-miR-3924 TargetScan Predicted Nonconserved microRNA Targets 1.0 1.7397 SNAI2_01_225 KnockTF Gene Expression Profiles with Transcription Factor Perturbations 1.0 5.22172 CJM CCLE Cell Line Gene CNV Profiles -1.0 -1.62864 GSE149880_2_v_3_tamoxifen_mouse RummaGEO Drug Perturbation Signatures 1.0 null G-361 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles 1.0 1.24222 FC-22-VC55_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 2.67345 PMC4755536__F7 PFOCR Pathway Figure Associations 2024 1.0 null Perturb_3925_KD_VPS37C_SRP266781 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 6.16282 Retrosplenial area, ventral part, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.13554 Declive (VI), molecular layer Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.81158 LNCAP-CLONE-FGC COSMIC Cell Line Gene Mutation Profiles 1.0 null hsa-miR-500b TargetScan Predicted Nonconserved microRNA Targets 1.0 1.07142 LP1 DepMap CRISPR Gene Dependency 1.0 3.2095 CA-66-YB17_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.723582 r6 basal plate Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.08219 ZNF341 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 17.8587 GSE179880_10_v_13_e2f4_mouse RummaGEO Gene Perturbation Signatures 1.0 null FOS_MCF 10A_hg19_1 ENCODE Transcription Factor Binding Site Profiles 1.0 null r3 part of magnocellular medial vestibular nucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.11273 Plant parenchyma TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 0.824 Copula pyramidis Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.12929 Secondary motor area, layer 1 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.64444 HOS CCLE Cell Line Gene CNV Profiles 1.0 1.67324 BE-59-WG31_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 1.2232 SW 527 Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles -1.0 -0.870985 AD-58-PW17_10uM NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles 1.0 0.573353 Cornified envelope COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 1.0 1.782 r7 part of gigantocellular reticular area Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 2.10339 layer 2 of PCx Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.24456 H3K4me1_embryonic fibroblast_mm9_1 ENCODE Histone Modification Site Profiles 1.0 null Primary somatosensory area, lower limb, layer 2/3 Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles 1.0 1.10127 ZNF189 JASPAR Predicted Human Transcription Factor Targets 2025 1.0 38.829 Stolon tip TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 1.0 1.15 Koelliker-Fuse subnucleus Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles -1.0 -1.27394 PMC12048643-44318_2025_409_MOESM3_ESM.xlsx-regulonTargets-ETV4_ETV4 Rummagene Transcription Factor Associations 2026 1.0 null hsa-miR-4695-5p TargetScan Predicted Nonconserved microRNA Targets 1.0 0.880544 GSE193993_5_v_3_sstr2_human RummaGEO Gene Perturbation Signatures -1.0 null Perturb_6626_KO_TEAD1_SRP315348 PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations 1.0 20.0