is a Data Source.
NCBI Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
infores:ncbi-gene
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| ncbigene.gene2accession | Gene to Accession Mapping | gene2accession.gz (4.2 GB) | Mapping | tsv | Gene to accession mapping data provid... |
| ncbigene.gene2ensembl | Gene to Ensembl Mapping | gene2ensembl.gz (275.5 MB) | Mapping | tsv | Gene to Ensembl mapping data providin... |
| ncbigene.gene2go | Gene to GO Mapping | gene2go.gz (1.2 GB) | Mapping | tsv | Gene to Gene Ontology mapping data pr... |
| ncbigene.gene2pubmed | Gene to PubMed Mapping | gene2pubmed.gz (255.0 MB) | Mapping | tsv | Gene to PubMed mapping data providing... |
| ncbigene.gene2refseq | Gene to RefSeq Mapping | gene2refseq.gz (2.1 GB) | Mapping | tsv | Gene to RefSeq mapping data providing... |
| ncbigene.gene_group | Gene Group Data | gene_group.gz (289.7 KB) | Product | tsv | Gene group information defining funct... |
| ncbigene.gene_history | Gene History Data | gene_history.gz (152.2 MB) | Product | tsv | Gene history data tracking changes an... |
| ncbigene.gene_info | Gene Information | gene_info.gz (1.4 GB) | Product | tsv | Comprehensive gene information includ... |
| ncbigene.gene_neighbors | Gene Neighbors Data | gene_neighbors.gz (1.9 GB) | Product | tsv | Gene neighbor information showing gen... |
| ncbigene.gene_orthologs | Gene Orthologs Data | gene_orthologs.gz (120.6 MB) | Product | tsv | Gene ortholog information showing evo... |
| ncbigene.gene_refseq_uniprotkb_collab | Gene RefSeq UniProtKB Collaboration Data | gene_refseq_uniprotkb_collab.gz (749.8 MB) | Mapping | tsv | Gene to RefSeq/UniProtKB collaboratio... |
| ncbigene.gene_summary | Gene Summary Data | gene_summary.gz (21.3 MB) | Product | tsv | Gene summary information providing br... |
| ncbigene.mim2gene_medgen | MIM to Gene MedGen Mapping | mim2gene_medgen (932.6 KB) | Mapping | tsv | MIM to Gene and MedGen mapping data c... |
| ncbigene.search | NCBI Gene Search Interface | gene | Graphical Interface | http | Web-based search and browsing interfa... |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| spoke.graph | SPOKE Graph | data-tools | Graph | http | had primary source | The SPOKE knowledge graph containing ... |
| alzkb.browser | AlzKB Graph Database Browser | login | Graphical Interface | http | had primary source | A browser interface for a knowledge g... |
| alzkb.data | AlzKB Data Release (Version 2.0.0) | v2.0.0 | Graph | mixed | had primary source | Memgraph data release for AlzKB. |
| pharmkg.graph | PharmKG graph | 4077338 | Graph | mixed | had primary source | Cleaned benchmark graph (PharmKG-8k) ... |
| pheknowlator.graph | PheKnowLator graph | knowledge_graphs?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&inv=1&invt=Ab5_1Q&project=pheknowlator | Graph | owl | had primary source | PheKnowLator graph files, including s... |
| omim.mim2gene | OMIM mim2gene.txt | mim2gene.txt (951.6 KB) | Mapping | tsv | had primary source | Public mapping of MIM numbers to NCBI... |
| rna-kg.kg.neo4j | RNA-KG Neo4j Dump | rnakgv20.dump (3.7 GB) | Graph | neo4j | had primary source | RNA-KG as a Neo4j Dump |
| rna-kg.kg.nodes | RNA-KG Nodes | nodes.csv (4.1 GB) | Graph | csv | had primary source | RNA-KG Nodes in CSV format |
| rna-kg.kg.edges | RNA-KG Edges | edges.csv (17.1 GB) | Graph | csv | had primary source | RNA-KG Edges in CSV format |
| microbiomekg.api | MicrobiomeKG Plover TRAPI API | mbkp | Programming Interface | http | had primary source | Plover-hosted TRAPI web API for query... |
| aop-db.data | AOP-DB Data | adverse-outcome-pathway-database-aop-db-version-2 | Product | http | had primary source | The EPA has developed the Adverse Out... |
| genecards.gene.annotations ⚠ | GeneCards Gene Annotations | www.genecards.org | Product | http | had primary source | Integrated gene annotation data aggre... |
| biogrid.identifiers | BIOGRID-IDENTIFIERS-LATEST.tab.zip | BIOGRID-IDENTIFIERS-LATEST.tab.zip | Mapping | tsv | had primary source | A single delimited text file format c... |
| unibiomap.links | UniBioMap Graph Links | unibiomap.links.csv (1.3 GB) | Graph | csv | had primary source | Core UniBioMap graph edges file. |
| unibiomap.auxs | UniBioMap Graph Auxiliaries | unibiomap.auxs.tsv (563.9 MB) | Graph | tsv | had primary source | Auxiliary UniBioMap graph annotations... |
| unibiomap.pred | UniBioMap Predicted Graph | unibiomap.pred.csv (2.3 GB) | Graph | csv | had primary source | Predicted UniBioMap graph edges with ... |
| unibiomap.pred.full | UniBioMap Predicted Graph (Full) | unibiomap.pred.full.csv (5.9 GB) | Graph | csv | had primary source | Full unfiltered UniBioMap predicted g... |
| translator.translator_kg.graph | Translator Aggregate KGX Graph | latest | Graph | kgx-jsonl | had primary source | Aggregated KGX JSONL graph package co... |
| oma.mapping.entrez | OMA to Entrez Gene Mapping | oma-entrez.txt.gz | Mapping | tsv | had primary source | Mapping of OMA identifiers to Entrez ... |
| hetionet.neo4j | Hetionet v1.0 Neo4j Database | browser | Graphical Interface | http | had primary source | Browser for complete Hetionet v1.0 gr... |
| hetionet.data.json | Hetionet v1.0 JSON | hetionet-v1.0.json.bz2 (131 B) | Graph | json | had primary source | Hetionet v1.0 in JSON format |
| hetionet.data.neo4j | Hetionet v1.0 Neo4j | hetionet-v1.0.db.tar.bz2 (132 B) | Graph | neo4j | had primary source | Hetionet v1.0 as a Neo4j database |
| hetionet.data.edges | Hetionet v1.0 edges (SIF) | hetionet-v1.0-edges.sif.gz (131 B) | Graph | sif | had primary source | Hetionet v1.0 as SIF edges |
| hetionet.data.nodes | Hetionet v1.0 nodes (TSV) | hetionet-v1.0-nodes.tsv (417.1 KB) | Graph | tsv | had primary source | Hetionet v1.0 as TSV nodes |
| hetionet.hetnetpy | hetnetpy | hetnetpy | Process | python | had primary source | Python package for creating, querying... |
| hetionet.search | Hetnet Connectivity Search | search | Graphical Interface | http | had primary source | Web application to search and explore... |
| rtx-kg2.graph.nodes | RTX-KG2.10.1c KGX JSONL Nodes | kg2c-2.10.1-v1.0-nodes.jsonl.gz (359.1 MB) | Graph | kgx-jsonl | had primary source | Nodes for KGX distribution of the RTX... |
| rtx-kg2.graph.edges | RTX-KG2.10.1c KGX JSONL Edges | kg2c-2.10.1-v1.0-edges.jsonl.gz (1.7 GB) | Graph | kgx-jsonl | had primary source | Edges for KGX distribution of the RTX... |
| rtx-kg2.neo4j | RTX-KG2 Neo4j | arax.ncats.io | Programming Interface | http | had primary source | Neo4j distribution of the RTX-KG2 as ... |
| pharmebinet.json | PharMeBINet JSON Release | content (1.8 GB) | Graph | json | was derived from | PharMeBINet V2 JSON release published... |
| pharmebinet.tsv | PharMeBINet TSV Release | content (1.8 GB) | Graph | tsv | was derived from | PharMeBINet V2 TSV release published ... |
| pharmebinet.graphml | PharMeBINet GraphML Release | content (1.9 GB) | Graph | mixed | was derived from | PharMeBINet V2 GraphML release publis... |
| pharmebinet.neo4j | PharMeBINet Neo4j Database | content (3.6 GB) | Graph | neo4j | was derived from | PharMeBINet V2 Neo4j database release... |
| pharmebinet.neo4j.dump | PharMeBINet Neo4j Dump | content (3.4 GB) | Graph | neo4j | was derived from | PharMeBINet V2 Neo4j dump release pub... |
| entrez.eutils | Entrez E-utilities | NBK25501 | Programming Interface | json | was informed by | E-utilities API for programmatic acce... |
| gencode.human.gtf | GENCODE Human Annotations GTF | gencode.v49.annotation.gtf.gz (89.0 MB) | Product | gff | was informed by | Current comprehensive GENCODE gene an... |
| gencode.mouse.gtf | GENCODE Mouse Annotations GTF | gencode.vM38.annotation.gtf.gz (35.9 MB) | Product | gff | was informed by | Current comprehensive GENCODE gene an... |
| gendr.data | GenDR Data Download | dataset.zip (8.0 KB) | Product | csv | was informed by | Downloadable dataset of dietary restr... |
| gtrx.data ⚠ | gTRx Data | metadata | Product | mixed | was informed by | BioThings GTRx association collection... |
| biobtree.api | BioBTree REST API | api | Programming Interface | http | had primary source | REST API for searching identifiers an... |
| genecards.web.interface | GeneCards Web Interface | www.genecards.org | Graphical Interface | http | had primary source | Web-based interface for searching and... |
| biobtree.graph.human-subgraph | BioBTree Knowledge Graph - Human Subgraph (KGX) | 20816742 | Graph | kgx | had primary source | Human-scoped, Neo4j-ready subgraph of... |
| kg-alzheimers.graph ⚠ | KGX Distribution of KG-Alzheimers | kg-alzheimers.tar.gz (201.1 MB) | Graph | kgx | had primary source | KGX Distribution of KG-Alzheimers |
| kg-covid-19.graph ⚠ | KG-COVID-19 graph | kg-covid-19 | Graph | kgx | had primary source | KGX nodes and edges for KG-COVID-19 |
| pharmdb.graph | PharmDB-K Graph | ❔ | Graph | http | had primary source | Integrated pharmacological knowledge ... |
| primekg.graph ⚠ | PrimeKG Full Dataset | 6180620 | Graph | csv | had primary source | The full PrimeKG dataset containing d... |
| sri-reference-kg.graph | SRI-Reference KG (KGX distribution) | monarch-kg.tar.gz (219.4 MB) | Graph | kgx | had primary source | KGX distribution of the SRI-Reference KG |
| ncatsgardkg.graph | NCATS GARD Knowledge Graph | processed | Graph | http | was influenced by | Integrated rare-disease knowledge gra... |
| spoke-okn.graph | SPOKE-OKN Graph | spoke.ucsf.edu | Graph | ttl | was influenced by | The SPOKE-OKN knowledge graph, an OKN... |
| pubchem.substances.asn | PubChem Substances ASN | ASN | Product | xml | was influenced by | PubChem substance information in ASN.... |
| pubchem.substances.sdf | PubChem Substances SDF | SDF | Product | sdf | was influenced by | PubChem substance information in SDF ... |
| omia.gene-mappings | OMIA to NCBI Gene mappings | genes | Mapping | csv | had primary source | A CSV mapping OMIA internal gene iden... |
| aopwiki-rdf.ttl | AOP-Wiki RDF Turtle Dataset | data | Graph | ttl | used | The AOP-Wiki RDF dataset in RDF/Turtl... |
| ctd.chem_gene_ixns | CTD Chemical-Gene Interactions | CTD_chem_gene_ixns.tsv.gz (41.1 MB) | Product | tsv | was derived from | Curated chemical-gene and chemical-pr... |
| ctd.genes_diseases | CTD Gene-Disease Associations | CTD_genes_diseases.tsv.gz (3.0 GB) | Product | tsv | was derived from | Gene-disease associations, both curat... |
| ctd.genes | CTD Gene Vocabulary | CTD_genes.tsv.gz (117.2 MB) | Product | tsv | was derived from | CTD's gene vocabulary, keyed by NCBI ... |
Created: June 04, 2025 | Last modified: September 23, 2026