Downloads

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Resource Dataset Description Category Attribute Views Archived
Achilles Cell Line Gene Essentiality Profiles Fitness scores for cell lines following single gene knockdowns disease or phenotype associations cell line 29206 false
Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles mRNA expression profiles for 6 adult human brain tissue samples spanning ~300 brain structures transcriptomics tissue 53137 false
Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles mRNA expression profiles for adult mouse brain tissues spanning ~2000 anatomically defined brain structures transcriptomics tissue 25054 false
Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray mRNA expression profiles for human brain tissue samples spanning 27 time points and 26 brain structures transcriptomics tissue sample 12058 false
Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq mRNA expression profiles for human brain tissue samples spanning 31 time points and 26 brain structures transcriptomics tissue sample 11450 false
Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles mRNA expression profiles for 4 human prenatal brain tissue samples spanning 4 time points and ~300 brain structures transcriptomics tissue 12675 false
Biocarta Pathways Sets of proteins participating in pathways from Biocarta structural or functional annotations pathway 88287 false
BioGPS Cell Line Gene Expression Profiles mRNA expression profiles for the NCI-60 panel of cancer cell lines transcriptomics cell line 56149 false
BioGPS Human Cell Type and Tissue Gene Expression Profiles mRNA expression profiles for human tissues and cell types transcriptomics cell type or tissue 25403 false
BioGPS Mouse Cell Type and Tissue Gene Expression Profiles mRNA expression profiles for mouse tissues and cell types transcriptomics cell type or tissue 32134 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene CNV Profiles Gene-level copy number variation profiles for cancer cell lines genomics cell line 42995 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene Expression Profiles mRNA microarray expression profiles for cancer cell lines transcriptomics cell line 137555 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene Mutation Profiles Gene-level mutation profiles for cancer cell lines genomics cell line 43798 false
ChIP-X Enrichment Analysis (ChEA) Transcription Factor Binding Site Profiles Transcription factor binding site profiles from published ChIP-chip, ChIP-seq, and other transcription factor functional studies genomics transcription factor binding site profile 35321 true
ChIP-X Enrichment Analysis (ChEA) Transcription Factor Targets Target genes of transcription factors from published ChIP-chip, ChIP-seq, and other transcription factor binding site profiling studies genomics transcription factor 115743 false
ClinVar Gene-Phenotype Associations SNP-phenotype associations curated by ClinVar users from various sources disease or phenotype associations phenotype 16435 true
Connectivity Map (CMAP) Signatures of Differentially Expressed Genes for Small Molecules mRNA expression profiles for cell lines following chemical perturbation transcriptomics small molecule perturbation 20338 false
COMPARTMENTS Curated Protein Localization Evidence Scores Protein subcellular localization evidence scores by manual literature curation structural or functional annotations cellular component 10576 true
COMPARTMENTS Experimental Protein Localization Evidence Scores Protein subcellular localization evidence scores by integrating experimental data proteomics cellular component 5936 true
COMPARTMENTS Text-mining Protein Localization Evidence Scores Gene-cellular compartment co-occurrence scores from text-mining biomedical abstracts structural or functional annotations cellular component 11601 true
CORUM Protein Complexes Proteins participating in complexes by manual literature curation structural or functional annotations protein complex 24631 false
Catalogue of Somatic Mutations In Cancer (COSMIC) Cell Line Gene CNV Profiles Gene-level copy number variation profiles for cancer cell lines genomics cell line 17549 false
Catalogue of Somatic Mutations In Cancer (COSMIC) Cell Line Gene Mutation Profiles Gene mutations in cancer cell lines from low-throughput or high-throughput studies genomics cell line 32790 false
Comparative Toxicogenomics Database (CTD) Gene-Chemical Interactions Chemical-gene interactions curated from literature physical interactions chemical 205405 false
Comparative Toxicogenomics Database (CTD) Gene-Disease Associations Disease-gene interactions from manually curated literature disease or phenotype associations disease 50780 false
Database of Genotypes and Phenotypes (dbGAP) Gene-Trait Associations Gene-trait associations curated from genetic association studies disease or phenotype associations trait 11251 false
Dephosphorylation Database (DEPOD) Substrates of Phosphatases Phosphatase-substrate interactions manually curated from literature and databases of protein annotations or protein interactions physical interactions phosphatase 6221 false
DISEASES Curated Gene-Disease Association Evidence Scores Disease gene evidence scores by manual literature curation disease or phenotype associations disease 10466 true
DISEASES Experimental Gene-Disease Association Evidence Scores Disease gene evidence scores by integrating experimental data (GWAS) disease or phenotype associations disease 13068 true
DISEASES Text-mining Gene-Disease Association Evidence Scores Gene-disease co-occurrence scores from text-mining biomedical abstracts disease or phenotype associations disease 48682 true
DrugBank Drug Targets Sets of proteins targeted by drugs by manual literature curation physical interactions drug 130042 false
Encyclopedia of DNA Elements (ENCODE) Histone Modification Site Profiles Histone site modification profiles for cell lines from ENCODE genomics histone modification site profile 12578 false
Encyclopedia of DNA Elements (ENCODE) Transcription Factor Binding Site Profiles Transcription factor binding site profiles for cell lines genomics transcription factor binding site profile 27791 false
Encyclopedia of DNA Elements (ENCODE) Transcription Factor Targets Target genes of transcription factors from transcription factor binding site profiles genomics transcription factor 161502 false
ESCAPE Omics Signatures of Genes and Proteins for Stem Cells Sets of target genes of transcription factors from published ChIP-chip, ChIP-seq, and other transcription factor binding site profiling studies;sets of differentially expressed genes following perturbation of a protein from gene expression data in GEO; sets of interacting proteins from high- and low-throughput protein-protein interaction studies; sets of targets of microRNAs from public databases, computationally predicted or experimentally verified transcriptomics PubMedID 7680 false
Genetic Association Database (GAD) Gene-Disease Associations Gene-disease associations curated from genetic association studies disease or phenotype associations disease 49315 false
Genetic Association Database (GAD) High Level Gene-Disease Associations Gene-disease associations curated from genetic association studies disease or phenotype associations disease 10292 false
Genomics of Drug Sensitivity in Cancer (GDSC) Cell Line Gene Expression Profiles mRNA microarray expression profiles for cancer cell lines transcriptomics cell line 25627 false
Gene Reference Into Function (GeneRIF) Biological Term Annotations Statements describing functions of genes distilled from biomedical publications structural or functional annotations biological term 41978 false
GeneSigDB Published Gene Signatures Gene signatures reported in the literature that were derived from analysis of transcriptomic or proteomic data transcriptomics PubMedID 11017 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Diseases mRNA expression profiles for cell lines or tissues following disease perturbation transcriptomics disease perturbation 20889 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Gene Perturbations mRNA expression profiles for cell lines or tissues following genetic perturbation (knockdown, knockout, over-expression, mutation) transcriptomics gene perturbation 12422 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Kinase Perturbations mRNA expression profiles for cell lines or tissues following kinase perturbation (inhibition, activation, knockdown, knockout, over-expression, mutation) transcriptomics kinase perturbation 11360 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Small Molecules mRNA expression profiles for cell lines or tissues following small molecule perturbation transcriptomics small molecule perturbation 10046 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Transcription Factor Perturbations mRNA expression profiles for cell lines or tissues following transcription factor perturbation (inhibition, activation, knockdown, knockout, over-expression, mutation) transcriptomics transcription factor perturbation 15728 false
Gene Expression Omnibus (GEO) Signatures of Differentially Expressed Genes for Viral Infections mRNA expression profiles for cell lines or tissues following viral infection transcriptomics virus perturbation 11777 false
Gene Ontology (GO) Biological Process Annotations 2015 Curated annotations of genes with biological processes structural or functional annotations biological process 20209 true
Gene Ontology (GO) Cellular Component Annotations 2015 Curated annotations of genes with cellular components structural or functional annotations cellular component 11426 true
Gene Ontology (GO) Molecular Function Annotations 2015 Curated annotations of genes with molecular functions structural or functional annotations molecular function 14350 true
Genotype Tissue Expression (GTEx) eQTL Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression genomics SNP 11196 true
Genotype Tissue Expression (GTEx) Tissue Gene Expression Profiles Gene expression profiles for tissues from GTEx by RNA-seq transcriptomics tissue 28685 true
Genotype Tissue Expression (GTEx) Tissue Sample Gene Expression Profiles RNA-seq gene expression profiles for tissue samples from GTEx transcriptomics tissue sample 17663 false
Guide to Pharmacology Chemical Ligands of Receptors Chemical ligand-receptor interactions curated by experts physical interactions ligand (chemical) 38651 false
Guide to Pharmacology Protein Ligands of Receptors Protein ligand-receptor interactions curated by experts physical interactions ligand (protein) 4776 false
GWAS Catalog SNP-Phenotype Associations SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 15560 true
GWASdb SNP-Disease Associations SNP-disease association p-values curated from published GWAS disease or phenotype associations disease 35987 false
GWASdb SNP-Phenotype Associations SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 13111 false
Heiser et al., PNAS, 2011 Cell Line Gene Expression Profiles mRNA expression profiles for breast cancer cell lines measured by microarray transcriptomics cell line 7814 false
Human Metabolome Database Metabolites of Enzymes Biomolecular interactions between metabolites and proteins, such as processing enzymes, curated from literature physical interactions metabolite 17249 false
Human Protein Atlas (HPA) Cell Line Gene Expression Profiles RNA-seq gene expression profiles for cell lines from HPA transcriptomics cell line 17001 false
Human Protein Atlas (HPA) Tissue Gene Expression Profiles RNA-seq gene expression profiles for tissues from HPA transcriptomics tissue 16342 false
Human Protein Atlas (HPA) Tissue Protein Expression Profiles Semiquantitative protein expression profiles for tissues proteomics tissue 7880 false
Human Protein Atlas (HPA) Tissue Sample Gene Expression Profiles RNA-seq gene expression profiles for tissue samples from HPA transcriptomics tissue sample 8076 false
Human Proteome Map (HPM) Cell Type and Tissue Protein Expression Profiles Protein expression profiles for tissues and cell types proteomics cell type or tissue 6167 false
Human Phenotype Ontology (HPO) Gene-Disease Associations Phenotype-causing gene mutations of human phenotypes from disease knowledgebases disease or phenotype associations phenotype 55472 false
Hub Proteins Protein-Protein Interactions Sets of proteins interacting with hub proteins aggregated from data physical interactions hub protein 15763 false
HuGE Navigator Gene-Phenotype Associations Gene-phenotype associations extracted from published GWAS by automated text-mining disease or phenotype associations phenotype 16908 false
HumanCyc Pathways Sets of proteins participating in pathways from HumanCyc structural or functional annotations pathway 7466 false
InterPro Predicted Protein Domain Annotations Protein domains predicted for gene products based on sequence similarity to known domain signatures structural or functional annotations protein domain 33840 false
Jaspar PWMs Predicted Transcription Factor Targets Target genes of transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 52622 true
Kinase Enrichment Analysis (KEA) Substrates of Kinases Protein substrates of kinases from published low-throughput and high-throughput phosphoproteomics studies physical interactions kinase 12970 false
Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathways Sets of proteins participating in pathways from KEGG structural or functional annotations pathway 24131 true
LINCS Kinativ Kinase Inhibitor Bioactivity Profiles Percent inhibition of kinases by small molecules measured in cell lysates physical interactions chemical bioactivity profile 5494 false
LINCS KinomeScan Kinase Inhibitor Targets Kinase inhibitor targets from percent inhibition of kinases by small molecules measured using purified kinases physical interactions small molecule 7698 false
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles Gene-level copy number variation profiles for cancer cell lines genomics cell line 10906 false
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles RNA-seq gene expression profiles for cancer cell lines transcriptomics cell line 16231 false
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Mutation Profiles SNP gene mutations in cancer cell lines identified by microarray genomics cell line 10588 false
LINCS L1000 Connectivity Map (L1000 CMAP) Signatures of Differentially Expressed Genes for Small Molecules mRNA expression profiles for cell lines following small molecule perturbation transcriptomics small molecule perturbation 20739 true
LOCATE Curated Protein Localization Annotations Subcellular localization of proteins from low-throughput or high-throughput protein localization assays proteomics cellular component 10422 false
MiRTarBase microRNA Targets Target genes of microRNAs from published experiments physical interactions microRNA 27612 false
MotifMap Predicted Transcription Factor Targets Target genes of transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 32674 false
Mammalian Phenotype Ontology (MPO) Gene-Phenotype Associations Observed phenotypes of transgenic mice collected from mouse phenotyping studies disease or phenotype associations phenotype 25960 true
Molecular Signatures Database (MSigDB) Cancer Gene Co-expression Modules Computational signatures of genes co-expressed with cancer related genes transcriptomics co-expressed gene 10452 false
Molecular Signatures Database (MSigDB) Signatures of Differentially Expressed Genes for Cancer Gene Perturbations Oncogenic signatures of genes differentially expressed following cancer gene perturbations transcriptomics gene perturbation 9944 false
Nuclear Receptor Signaling Atlas (NURSA) Protein Complexes Proteins identified in complexes isolated from cultured cells proteomics protein complex 14147 false
Nuclear Receptor Signaling Atlas (NURSA) Protein-Protein Interactions Protein-protein interactions inferred from membership in complexes proteomics interacting protein 10910 false
Online Mendelian Inheritance in Man (OMIM) Gene-Disease Associations Disease- or phenotype-causing gene mutations for heritable human diseases or phenotypes curated from biomedical publications disease or phenotype associations phenotype 36947 false
PANTHER Pathways Sets of proteins participating in pathways from PANTHER structural or functional annotations pathway 14615 false
Pathway Commons (PC) Protein-Protein Interactions Protein-protein interactions from low-throughput or high-throughput studies aggregated by Pathway Commons from the following databases: Reactome, NCI Pathways, PhosphoSite, HumanCyc, HPRD, PANTHER, DIP, BioGRID, IntAct, BIND, Transfac, MiRTarBase, Drugbank, Recon X, Comparative Toxicogenomics Database, and KEGG physical interactions interacting protein 103024 false
Phosphosite Textmining Biological Term Annotations Occurrence frequencies for biological terms in abstracts of publications describing phosphosites structural or functional annotations biological term 4603 false
PhosphoSitePlus Substrates of Kinases Kinase-substrate interactions curated from low-throughput or high-throughput phosphoproteomics studies physical interactions kinase 20444 false
Pathway Interaction Database (PID) Pathways Sets of proteins participating in pathways from PID structural or functional annotations pathway 19724 false
Proteomics Database (ProteomicsDB) Cell Type and Tissue Protein Expression Profiles Protein expression profiles for tissues and cell types reprocessed from many proteomics datasets proteomics cell type or tissue 20286 false
Reactome Pathways 2014 Sets of proteins participating in pathways from Reactome structural or functional annotations pathway 14923 true
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles DNA methylation profiles for primary cell types and tissues genomics cell type or tissue 12819 false
Roadmap Epigenomics Cell and Tissue Gene Expression Profiles mRNA expression profiles for primary cell types and tissues transcriptomics cell type or tissue 8647 false
Roadmap Epigenomics Histone Modification Site Profiles Histone modification profiles for primary cells and tissues genomics histone modification site profile 10164 false
SILAC Phosphoproteomics Signatures of Differentially Phosphorylated Proteins for Drugs Phosphorylation levels of proteins in cell lines following drug treatment proteomics drug perturbation 5740 false
SILAC Phosphoproteomics Signatures of Differentially Phosphorylated Proteins for Gene Perturbations Phosphorylation levels of proteins in cell lines following genetic perturbation (knockdown, knockout, over-expression, mutation) proteomics gene perturbation 3474 false
SILAC Phosphoproteomics Signatures of Differentially Phosphorylated Proteins for Protein Ligands Phosphorylation levels of proteins in cell lines following ligand treatment proteomics ligand (protein) perturbation 4994 false
TargetScan Predicted Conserved microRNA Targets Target genes of microRNAs predicted by searching genes for sites matching conserved miRNA seed regions genomics microRNA 11792 false
The Cancer Genome Atlas (TCGA) Signatures of Differentially Expressed Genes for Tumors mRNA expression profiles for tumor and normal tissue samples transcriptomics tissue sample 24833 false
TISSUES Curated Tissue Protein Expression Evidence Scores Protein tissue expression evidence scores by manual literature curation structural or functional annotations tissue 10663 true
TISSUES Experimental Tissue Protein Expression Evidence Scores Protein tissue expression evidence scores by integrating experimental data proteomics tissue 8954 true
TISSUES Text-mining Tissue Protein Expression Evidence Scores Gene-tissue co-occurrence scores from text-mining biomedical abstracts structural or functional annotations tissue 34047 true
Virus MINT Protein-Viral Protein Interactions Interactions between viral and human proteins manually curated from literature physical interactions viral protein 8794 false
WikiPathways Pathways 2014 Sets of proteins participating in pathways from WikiPathways structural or functional annotations pathway 16252 true
Virus MINT Protein-Virus Interactions Interactions between viruses and human proteins manually curated from literature physical interactions virus 6064 false
LOCATE Predicted Protein Localization Annotations Subcellular localization of proteins by sequence similarity to localization sequences proteomics cellular component 6579 false
TargetScan Predicted Nonconserved microRNA Targets Target genes of microRNAs predicted by searching genes for sites matching nonconserved miRNA seed regions genomics microRNA 8457 false
PhosphoSitePlus Phosphosite-Disease Associations Disease-phosphosite associations curated from literature disease or phenotype associations disease 5528 false
Sanger Cancer Dependency Map (DepMap) Cancer Cell Line Proteomics Protein intensity values acquired using data-independent acquisition mass spectrometry (DIA-MS). proteomics cell line 6378 false
knockTF Gene Expression Profiles with Transcription Factor Perturtbations Gene expression profiles for cell lines or tissues following transcription factor perturbation (knockdown/knockout) transcriptomics transcription factor perturbation 5991 false
Kinase Library Serine Threonine Kinome Atlas A phosphoproteomics atlas detailing phosphorylation of protein substrates by 303 serine/threonine kinases in the human kinome. proteomics kinase 5819 false
DeepCoverMOA Drug Mechanisms of Action Protein expression profiles in HCT116 cell line following drug treatment proteomics small molecule perturbation 4685 false
Tabula Sapiens Gene-Cell Associations Gene expression data from Tabula Sapiens scRNA-seq counts transcriptomics cell type 7378 false
DisGeNET Gene-Disease Associations Gene-disease associations sourced from curated repositories, GWAS catalogues, animal models and the scientific literature disease or phenotype associations disease 60043 false
DisGeNET Gene-Phenotype Associations Gene-phenotype associations sourced from curated repositories, GWAS catalogues, animal models and the scientific literature disease or phenotype associations phenotype 20593 false
Gene Ontology (GO) Biological Process Annotations 2023 Curated annotations of genes with biological processes structural or functional annotations biological process 17830 true
Gene Ontology (GO) Cellular Component Annotations 2023 Curated annotations of genes with cellular components structural or functional annotations cellular component 4472 true
Gene Ontology (GO) Molecular Function Annotations 2023 Curated annotations of genes with molecular functions structural or functional annotations molecular function 7163 true
Pathway Figure Optical Character Recognition (PFOCR) Pathway Figure Associations 2023 Sets of genes/proteins extracted from pathway figures in research publications using optical character recognition structural or functional annotations pathway 21002 true
Cancer Cell Line Encyclopedia (CCLE) Cell Line Proteomics Protein intensity values acquired using mass spectrometry across human cancerous cell lines proteomics cell line 12260 false
Cancer Dependency Map (DepMap) CRISPR Gene Dependency Dependency scores for cell lines following single gene knockdowns disease or phenotype associations cell line 19441 false
ChIP-X Enrichment Analysis (ChEA) Transcription Factor Targets 2022 Target genes of transcription factors from published ChIP-chip, ChIP-seq, and other transcription factor binding site profiling studies genomics transcription factor 15850 false
Mammalian Phenotype Ontology (MPO) Mouse Phenotype Associations 2023 Observed phenotypes of transgenic mice collected from mouse phenotyping studies disease or phenotype associations phenotype 19875 false
LINCS L1000 Connectivity Map (L1000 CMAP) CRISPR Knockout Consensus Signatures Gene association consensus signatures following CRISPR gene knockout transcriptomics gene perturbation 44707 false
Molecular Transducers of Physical Activity Consortium (MoTrPAC) Rat Endurance Exercise Training Transcriptomics RNA-seq gene expression profiles for rat tissue samples across 4 time points and 19 tissues transcriptomics tissue sample 2947 false
GlyGen Glycosylated Proteins Proteins glycosylated by saccharide ligands from glycosylation site citations proteomics glycan 3736 false
International Mouse Phenotyping Consortium (IMPC) Knockout Mouse Phenotypes Observed phenotypes of mice following gene knockout disease or phenotype associations phenotype 8074 false
Metabolomics Workbench (MW) Enzyme Metabolite Associations Biomolecular interactions between metabolites and proteins curated from experimental studies physical interactions metabolite 2396 false
LINCS L1000 Connectivity Map (L1000 CMAP) Chemical Perturbations Consensus Signatures Gene association consensus signatures following small molecule perturbation transcriptomics small molecule perturbation 18029 false
Genotype Tissue Expression (GTEx) Tissue Gene Expression Profiles 2023 Gene expression profiles for tissues from GTEx by RNA-seq transcriptomics tissue 10700 false
Genotype Tissue Expression (GTEx) Tissue-Specific Aging Signatures Tissue-specific aging signatures createed from GTEx RNA-seq gene expression profiles transcriptomics tissue sample 8923 false
The Human BioMolecular Atlas Program (HuBMAP) Azimuth Cell Type Annotations Gene-cell type annotations from integrated reference scRNA-seq gene expression profiles transcriptomics cell type 8718 false
SynGO Synaptic Gene Annotations Curated annotations of genes with synaptic processes and components structural or functional annotations biological term 4395 false
CellMarker Gene-Cell Type Associations Cell type markers across various tissues from human and mouse scRNA-seq transcriptomics cell type 14007 false
Kinase Library Tyrosine Kinome Atlas A phosphoproteomics atlas detailing phosphorylation of protein substrates by 93 canonical and non-canonical tyrosine kinases in the human kinome. proteomics kinase 3463 false
Pathway Figure Optical Character Recognition (PFOCR) Pathway Figure Associations 2024 Sets of genes/proteins extracted from pathway figures in research publications using optical character recognition, updated for 2024 structural or functional annotations pathway 29051 false
WikiPathways Pathways 2024 Sets of proteins participating in pathways from WikiPathways updated for 2024 structural or functional annotations pathway 5879 false
PerturbAtlas Signatures of Differentially Expressed Genes for Gene Perturbations Gene expression profiles for cell lines, cell types, tissues, and models following genetic perturbation (knockdown, knockout, knockin, over-expression, mutation, and multi-condition) transcriptomics gene perturbation 11760 false
PerturbAtlas Signatures of Differentially Expressed Genes for Mouse Gene Perturbations Gene expression profiles for cell lines, cell types, tissues, and models following genetic perturbation (knockdown, knockout, knockin, over-expression, mutation, and multi-condition) transcriptomics gene perturbation 2776 false
Reactome Pathways 2024 Sets of proteins participating in pathways from Reactome, updated for 2024 structural or functional annotations pathway 17994 false
The Human BioMolecular Atlas Program (HuBMAP) ASCT+B Annotations Anatomical structure and cell type biomarker annotations from the HuBMAP ASCT+B tables structural or functional annotations cell type 3487 false
RummaGEO Gene Perturbation Signatures Single gene perturbation signatures produced by querying RummaGEO metadata for knockouts, knockdowns, and over-expression conditions transcriptomics gene perturbation 2248 false
RummaGEO Drug Perturbation Signatures Drug perturbation signatures produced from automatically mined RNA-seq samples from GEO. transcriptomics drug perturbation 3837 false
The Human BioMolecular Atlas Program (HuBMAP) ASCT+B Augmented with RNA-seq Coexpression Anatomical structure and cell type biomarker annotations from the HuBMAP ASCT+B tables, augmented with RNA-seq coexpression data from ARCHS4 structural or functional annotations cell type 2174 false
Gene Ontology (GO) Biological Process Annotations 2025 curated annotations of genes with biological processes structural or functional annotations biological process 13409 false
Gene Ontology (GO) Cellular Component Annotations 2025 curated annotations of genes with cellular components structural or functional annotations cellular component 5615 false
Gene Ontology (GO) Molecular Function Annotations 2025 curated annotations of genes with molecular functions structural or functional annotations molecular function 1541 false
DISEASES Curated Gene-Disease Assocation Evidence Scores 2025 Disease gene evidence scores by manual literature curation disease or phenotype associations disease 12616 false
DISEASES Experimental Gene-Disease Association Evidence Scores 2025 Disease gene evidence scores by integrating experimental data (GWAS) disease or phenotype associations disease 15380 false
DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 Gene-disease co-occurrence scores from text-mining biomedical abstracts disease or phenotype associations disease 63790 false
Novartis Institutes for Biomedical Research (NIBR) DRUG-seq U2OS MoA Box Drug perturbation signatures created by profiling 4343 small molecules in the U2-OS cell line with the DRUG-seq platform transcriptomics drug perturbation 38116 false
Genotype Tissue Expression (GTEx) eQTL 2025 Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression genomics SNP 9702 false
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 Protein tissue expression evidence scores by manual literature curation structural or functional annotations tissue 11374 false
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 Protein tissue expression evidence scores by integrating experimental data proteomics cell type or tissue 9469 false
TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 Gene-tissue co-occurrence scores from text-mining biomedical abstracts structural or functional annotations cell type or tissue 38703 false
COMPARTMENTS Curated Protein Localization Evidence Scores 2025 Protein subcellular localization evidence scores by manual literature curation structural or functional annotations cellular component 3107 false
COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 Protein subcellular localization evidence scores by integrating experimental data proteomics cellular component 1381 false
COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 Gene-cellular compartment co-occurrence scores from text-mining biomedical abstracts structural or functional annotations cellular component 12017 false
Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures Gene expression profiles in the K562 cell line following CRISPRi genetic perturbation transcriptomics gene perturbation 12476 false
Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures Gene expression profiles in the K562 cell line following CRISPRi genetic perturbation of essential genes transcriptomics gene perturbation 13483 false
Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures Gene expression profiles in the RPE1 cell line following CRISPRi genetic perturbation of essential genes transcriptomics gene perturbation 8918 false
Tahoe Therapeutics Tahoe 100M Perturbation Atlas Single-cell expression data from drug perturbation across cell lines in over 95 million cells transcriptomics drug perturbation 30184 false
ClinVar Gene-Phenotype Associations 2025 SNP-phenotype associations curated by ClinVar users from various sources disease or phenotype associations phenotype 33885 false
Jaspar PWMs Predicted Human Transcription Factor Targets 2025 Target genes of human transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 54118 false
Jaspar PWMs Predicted Mouse Transcription Factor Targets 2025 Target genes of mouse transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 4431 false
Cell Maps for AI (CM4AI) U2OS Cell Map Protein Localization Assemblies Protein localization assemblies constructed from integrating AP-MS biomolecular interaction and IF imaging data structural or functional annotations biological term 1550 false
GWAS Catalog SNP-Phenotype Associations 2025 SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 24309 false
Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles mRNA expression profiles for dementia and traumatic brain injuries (TBI) from aging brain tissue transcriptomics tissue sample 2671 false
Sci-Plex Drug Perturbation Signatures sciRNA-seq expression profiles for A549, K562, and MCF7 cells treated with 188 compounds at 4 doses transcriptomics drug perturbation 5481 false
Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathways 2026 Sets of proteins participating in pathways from KEGG structural or functional annotations pathway 27197 false
Carcinogenome Chemical Perturbation Carcinogenicity Signatures Chemical carcinogenicity screening using high-throughput transcriptomics assays transcriptomics small molecule perturbation 869 false
Drug-Gene Interaction Database (DGIdb) Drug Targets 2026 Sets of proteins targeted by drugs by data aggregation physical interactions drug 448 false
Rummagene Transcription Factor Associations 2026 Sets of genes regulated by transcription factors by mining supplemental materials genomics transcription factor 333 false
Cell Maps for AI (CM4AI) KOLF21J CRISPRi Gene Perturbation Atlas Gene expression profiles in the KOLF2.1J cell line following CRISPRi genetic perturbation transcriptomics gene perturbation 798 false