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 26986 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 44642 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 21682 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 10764 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 9656 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 11198 false
Biocarta Pathways Sets of proteins participating in pathways from Biocarta structural or functional annotations pathway 83893 false
BioGPS Cell Line Gene Expression Profiles mRNA expression profiles for the NCI-60 panel of cancer cell lines transcriptomics cell line 52532 false
BioGPS Human Cell Type and Tissue Gene Expression Profiles mRNA expression profiles for human tissues and cell types transcriptomics cell type or tissue 23091 false
BioGPS Mouse Cell Type and Tissue Gene Expression Profiles mRNA expression profiles for mouse tissues and cell types transcriptomics cell type or tissue 28324 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene CNV Profiles Gene-level copy number variation profiles for cancer cell lines genomics cell line 39779 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene Expression Profiles mRNA microarray expression profiles for cancer cell lines transcriptomics cell line 129959 false
Cancer Cell Line Encyclopedia (CCLE) Cell Line Gene Mutation Profiles Gene-level mutation profiles for cancer cell lines genomics cell line 40593 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 32998 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 106832 false
ClinVar Gene-Phenotype Associations SNP-phenotype associations curated by ClinVar users from various sources disease or phenotype associations phenotype 14724 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 16976 false
COMPARTMENTS Curated Protein Localization Evidence Scores Protein subcellular localization evidence scores by manual literature curation structural or functional annotations cellular component 8561 true
COMPARTMENTS Experimental Protein Localization Evidence Scores Protein subcellular localization evidence scores by integrating experimental data proteomics cellular component 5154 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 10527 true
CORUM Protein Complexes Proteins participating in complexes by manual literature curation structural or functional annotations protein complex 20423 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 15898 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 30204 false
Comparative Toxicogenomics Database (CTD) Gene-Chemical Interactions Chemical-gene interactions curated from literature physical interactions chemical 79703 false
Comparative Toxicogenomics Database (CTD) Gene-Disease Associations Disease-gene interactions from manually curated literature disease or phenotype associations disease 40738 false
Database of Genotypes and Phenotypes (dbGAP) Gene-Trait Associations Gene-trait associations curated from genetic association studies disease or phenotype associations trait 10088 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 5359 false
DISEASES Curated Gene-Disease Association Evidence Scores Disease gene evidence scores by manual literature curation disease or phenotype associations disease 9447 true
DISEASES Experimental Gene-Disease Association Evidence Scores Disease gene evidence scores by integrating experimental data (GWAS) disease or phenotype associations disease 12197 true
DISEASES Text-mining Gene-Disease Association Evidence Scores Gene-disease co-occurrence scores from text-mining biomedical abstracts disease or phenotype associations disease 41587 true
DrugBank Drug Targets Sets of proteins targeted by drugs by manual literature curation physical interactions drug 112822 false
Encyclopedia of DNA Elements (ENCODE) Histone Modification Site Profiles Histone site modification profiles for cell lines from ENCODE genomics histone modification site profile 10417 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 23613 false
Encyclopedia of DNA Elements (ENCODE) Transcription Factor Targets Target genes of transcription factors from transcription factor binding site profiles genomics transcription factor 150065 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 6822 false
Genetic Association Database (GAD) Gene-Disease Associations Gene-disease associations curated from genetic association studies disease or phenotype associations disease 43991 false
Genetic Association Database (GAD) High Level Gene-Disease Associations Gene-disease associations curated from genetic association studies disease or phenotype associations disease 9208 false
Genomics of Drug Sensitivity in Cancer (GDSC) Cell Line Gene Expression Profiles mRNA microarray expression profiles for cancer cell lines transcriptomics cell line 20492 false
Gene Reference Into Function (GeneRIF) Biological Term Annotations Statements describing functions of genes distilled from biomedical publications structural or functional annotations biological term 36595 false
GeneSigDB Published Gene Signatures Gene signatures reported in the literature that were derived from analysis of transcriptomic or proteomic data transcriptomics PubMedID 9686 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 17736 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 10459 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 9933 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 8531 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 14412 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 10282 false
Gene Ontology (GO) Biological Process Annotations 2015 Curated annotations of genes with biological processes structural or functional annotations biological process 16706 true
Gene Ontology (GO) Cellular Component Annotations 2015 Curated annotations of genes with cellular components structural or functional annotations cellular component 9846 true
Gene Ontology (GO) Molecular Function Annotations 2015 Curated annotations of genes with molecular functions structural or functional annotations molecular function 10856 true
Genotype Tissue Expression (GTEx) eQTL Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression genomics SNP 9480 true
Genotype Tissue Expression (GTEx) Tissue Gene Expression Profiles Gene expression profiles for tissues from GTEx by RNA-seq transcriptomics tissue 22706 true
Genotype Tissue Expression (GTEx) Tissue Sample Gene Expression Profiles RNA-seq gene expression profiles for tissue samples from GTEx transcriptomics tissue sample 14090 false
Guide to Pharmacology Chemical Ligands of Receptors Chemical ligand-receptor interactions curated by experts physical interactions ligand (chemical) 27334 false
Guide to Pharmacology Protein Ligands of Receptors Protein ligand-receptor interactions curated by experts physical interactions ligand (protein) 3988 false
GWAS Catalog SNP-Phenotype Associations SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 13670 true
GWASdb SNP-Disease Associations SNP-disease association p-values curated from published GWAS disease or phenotype associations disease 33290 false
GWASdb SNP-Phenotype Associations SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 11659 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 7095 false
Human Metabolome Database Metabolites of Enzymes Biomolecular interactions between metabolites and proteins, such as processing enzymes, curated from literature physical interactions metabolite 14375 false
Human Protein Atlas (HPA) Cell Line Gene Expression Profiles RNA-seq gene expression profiles for cell lines from HPA transcriptomics cell line 14115 false
Human Protein Atlas (HPA) Tissue Gene Expression Profiles RNA-seq gene expression profiles for tissues from HPA transcriptomics tissue 14889 false
Human Protein Atlas (HPA) Tissue Protein Expression Profiles Semiquantitative protein expression profiles for tissues proteomics tissue 6898 false
Human Protein Atlas (HPA) Tissue Sample Gene Expression Profiles RNA-seq gene expression profiles for tissue samples from HPA transcriptomics tissue sample 6363 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 5191 false
Human Phenotype Ontology (HPO) Gene-Disease Associations Phenotype-causing gene mutations of human phenotypes from disease knowledgebases disease or phenotype associations phenotype 37607 false
Hub Proteins Protein-Protein Interactions Sets of proteins interacting with hub proteins aggregated from data physical interactions hub protein 14324 false
HuGE Navigator Gene-Phenotype Associations Gene-phenotype associations extracted from published GWAS by automated text-mining disease or phenotype associations phenotype 14769 false
HumanCyc Pathways Sets of proteins participating in pathways from HumanCyc structural or functional annotations pathway 6228 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 20454 false
Jaspar PWMs Predicted Transcription Factor Targets Target genes of transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 46844 true
Kinase Enrichment Analysis (KEA) Substrates of Kinases Protein substrates of kinases from published low-throughput and high-throughput phosphoproteomics studies physical interactions kinase 11499 false
Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathways Sets of proteins participating in pathways from KEGG structural or functional annotations pathway 22281 true
LINCS Kinativ Kinase Inhibitor Bioactivity Profiles Percent inhibition of kinases by small molecules measured in cell lysates physical interactions chemical bioactivity profile 3697 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 6476 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 9837 false
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles RNA-seq gene expression profiles for cancer cell lines transcriptomics cell line 15039 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 9510 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 17096 true
LOCATE Curated Protein Localization Annotations Subcellular localization of proteins from low-throughput or high-throughput protein localization assays proteomics cellular component 8673 false
MiRTarBase microRNA Targets Target genes of microRNAs from published experiments physical interactions microRNA 23440 false
MotifMap Predicted Transcription Factor Targets Target genes of transcription factors predicted using known transcription factor binding site motifs genomics transcription factor 30052 false
Mammalian Phenotype Ontology (MPO) Gene-Phenotype Associations Observed phenotypes of transgenic mice collected from mouse phenotyping studies disease or phenotype associations phenotype 18638 true
Molecular Signatures Database (MSigDB) Cancer Gene Co-expression Modules Computational signatures of genes co-expressed with cancer related genes transcriptomics co-expressed gene 9492 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 8430 false
Nuclear Receptor Signaling Atlas (NURSA) Protein Complexes Proteins identified in complexes isolated from cultured cells proteomics protein complex 12932 false
Nuclear Receptor Signaling Atlas (NURSA) Protein-Protein Interactions Protein-protein interactions inferred from membership in complexes proteomics interacting protein 10029 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 27177 false
PANTHER Pathways Sets of proteins participating in pathways from PANTHER structural or functional annotations pathway 12476 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 70565 false
Phosphosite Textmining Biological Term Annotations Occurrence frequencies for biological terms in abstracts of publications describing phosphosites structural or functional annotations biological term 4008 false
PhosphoSitePlus Substrates of Kinases Kinase-substrate interactions curated from low-throughput or high-throughput phosphoproteomics studies physical interactions kinase 15267 false
Pathway Interaction Database (PID) Pathways Sets of proteins participating in pathways from PID structural or functional annotations pathway 18055 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 15949 false
Reactome Pathways 2014 Sets of proteins participating in pathways from Reactome structural or functional annotations pathway 13498 true
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles DNA methylation profiles for primary cell types and tissues genomics cell type or tissue 11171 false
Roadmap Epigenomics Cell and Tissue Gene Expression Profiles mRNA expression profiles for primary cell types and tissues transcriptomics cell type or tissue 7519 false
Roadmap Epigenomics Histone Modification Site Profiles Histone modification profiles for primary cells and tissues genomics histone modification site profile 8378 false
SILAC Phosphoproteomics Signatures of Differentially Phosphorylated Proteins for Drugs Phosphorylation levels of proteins in cell lines following drug treatment proteomics drug perturbation 5033 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 3077 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 4291 false
TargetScan Predicted Conserved microRNA Targets Target genes of microRNAs predicted by searching genes for sites matching conserved miRNA seed regions genomics microRNA 8566 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 21087 false
TISSUES Curated Tissue Protein Expression Evidence Scores Protein tissue expression evidence scores by manual literature curation structural or functional annotations tissue 9747 true
TISSUES Experimental Tissue Protein Expression Evidence Scores Protein tissue expression evidence scores by integrating experimental data proteomics tissue 8081 true
TISSUES Text-mining Tissue Protein Expression Evidence Scores Gene-tissue co-occurrence scores from text-mining biomedical abstracts structural or functional annotations tissue 26361 true
Virus MINT Protein-Viral Protein Interactions Interactions between viral and human proteins manually curated from literature physical interactions viral protein 7662 false
WikiPathways Pathways 2014 Sets of proteins participating in pathways from WikiPathways structural or functional annotations pathway 15225 true
Virus MINT Protein-Virus Interactions Interactions between viruses and human proteins manually curated from literature physical interactions virus 5109 false
LOCATE Predicted Protein Localization Annotations Subcellular localization of proteins by sequence similarity to localization sequences proteomics cellular component 5689 false
TargetScan Predicted Nonconserved microRNA Targets Target genes of microRNAs predicted by searching genes for sites matching nonconserved miRNA seed regions genomics microRNA 7359 false
PhosphoSitePlus Phosphosite-Disease Associations Disease-phosphosite associations curated from literature disease or phenotype associations disease 4870 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 3827 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 3971 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 3887 false
DeepCoverMOA Drug Mechanisms of Action Protein expression profiles in HCT116 cell line following drug treatment proteomics small molecule perturbation 3506 false
Tabula Sapiens Gene-Cell Associations Gene expression data from Tabula Sapiens scRNA-seq counts transcriptomics cell type 4196 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 29210 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 11320 false
Gene Ontology (GO) Biological Process Annotations 2023 Curated annotations of genes with biological processes structural or functional annotations biological process 9484 true
Gene Ontology (GO) Cellular Component Annotations 2023 Curated annotations of genes with cellular components structural or functional annotations cellular component 3015 true
Gene Ontology (GO) Molecular Function Annotations 2023 Curated annotations of genes with molecular functions structural or functional annotations molecular function 4182 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 10688 true
Cancer Cell Line Encyclopedia (CCLE) Cell Line Proteomics Protein intensity values acquired using mass spectrometry across human cancerous cell lines proteomics cell line 6524 false
Cancer Dependency Map (DepMap) CRISPR Gene Dependency Dependency scores for cell lines following single gene knockdowns disease or phenotype associations cell line 6926 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 10397 false
Mammalian Phenotype Ontology (MPO) Mouse Phenotype Associations 2023 Observed phenotypes of transgenic mice collected from mouse phenotyping studies disease or phenotype associations phenotype 7661 false
LINCS L1000 Connectivity Map (L1000 CMAP) CRISPR Knockout Consensus Signatures Gene association consensus signatures following CRISPR gene knockout transcriptomics gene perturbation 24946 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 1422 false
GlyGen Glycosylated Proteins Proteins glycosylated by saccharide ligands from glycosylation site citations proteomics glycan 2390 false
International Mouse Phenotyping Consortium (IMPC) Knockout Mouse Phenotypes Observed phenotypes of mice following gene knockout disease or phenotype associations phenotype 3183 false
Metabolomics Workbench (MW) Enzyme Metabolite Associations Biomolecular interactions between metabolites and proteins curated from experimental studies physical interactions metabolite 1488 false
LINCS L1000 Connectivity Map (L1000 CMAP) Chemical Perturbations Consensus Signatures Gene association consensus signatures following small molecule perturbation transcriptomics small molecule perturbation 6448 false
Genotype Tissue Expression (GTEx) Tissue Gene Expression Profiles 2023 Gene expression profiles for tissues from GTEx by RNA-seq transcriptomics tissue 3911 false
Genotype Tissue Expression (GTEx) Tissue-Specific Aging Signatures Tissue-specific aging signatures createed from GTEx RNA-seq gene expression profiles transcriptomics tissue sample 4526 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 3517 false
SynGO Synaptic Gene Annotations Curated annotations of genes with synaptic processes and components structural or functional annotations biological term 1943 false
CellMarker Gene-Cell Type Associations Cell type markers across various tissues from human and mouse scRNA-seq transcriptomics cell type 7289 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 1491 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 14978 false
WikiPathways Pathways 2024 Sets of proteins participating in pathways from WikiPathways updated for 2024 structural or functional annotations pathway 2939 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 3732 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 800 false
Reactome Pathways 2024 Sets of proteins participating in pathways from Reactome, updated for 2024 structural or functional annotations pathway 8179 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 1272 false
RummaGEO Gene Perturbation Signatures Single gene perturbation signatures produced by querying RummaGEO metadata for knockouts, knockdowns, and over-expression conditions transcriptomics gene perturbation 990 false
RummaGEO Drug Perturbation Signatures Drug perturbation signatures produced from automatically mined RNA-seq samples from GEO. transcriptomics drug perturbation 1245 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 1114 false
Gene Ontology (GO) Biological Process Annotations 2025 curated annotations of genes with biological processes structural or functional annotations biological process 3625 false
Gene Ontology (GO) Cellular Component Annotations 2025 curated annotations of genes with cellular components structural or functional annotations cellular component 1969 false
Gene Ontology (GO) Molecular Function Annotations 2025 curated annotations of genes with molecular functions structural or functional annotations molecular function 656 false
DISEASES Curated Gene-Disease Assocation Evidence Scores 2025 Disease gene evidence scores by manual literature curation disease or phenotype associations disease 10527 false
DISEASES Experimental Gene-Disease Association Evidence Scores 2025 Disease gene evidence scores by integrating experimental data (GWAS) disease or phenotype associations disease 13233 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 45123 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 22333 false
Genotype Tissue Expression (GTEx) eQTL 2025 Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression genomics SNP 8355 false
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 Protein tissue expression evidence scores by manual literature curation structural or functional annotations tissue 10122 false
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 Protein tissue expression evidence scores by integrating experimental data proteomics cell type or tissue 8124 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 28288 false
COMPARTMENTS Curated Protein Localization Evidence Scores 2025 Protein subcellular localization evidence scores by manual literature curation structural or functional annotations cellular component 1177 false
COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 Protein subcellular localization evidence scores by integrating experimental data proteomics cellular component 701 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 10281 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 3381 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 4188 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 3160 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 5922 false
ClinVar Gene-Phenotype Associations 2025 SNP-phenotype associations curated by ClinVar users from various sources disease or phenotype associations phenotype 20387 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 46766 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 1384 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 452 false
GWAS Catalog SNP-Phenotype Associations 2025 SNP-phenotype association p-values curated from published GWAS disease or phenotype associations phenotype 16457 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 712 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 467 false
Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathways 2026 Sets of proteins participating in pathways from KEGG structural or functional annotations pathway 21984 false
Carcinogenome Chemical Perturbation Carcinogenicity Signatures Chemical carcinogenicity screening using high-throughput transcriptomics assays transcriptomics small molecule perturbation 75 false