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Download curated data sets to perform analyses or to construct links to CTD. Data is updated monthly (last: July 12, 2010).

Our Batch Query tool provides ways to download customized data.

Contents

  1. Curated Chemical–Gene Interactions
  2. Curated Chemical–Gene Interactions (Structured XML)
  3. Chemical–Disease Relationships
  4. Gene–Disease Relationships
  5. Chemical–Pathway Associations
  6. Disease–Pathway Associations
  7. Gene–Pathway Associations
  8. Chemicals
  9. Diseases
  10. Genes
  11. Chemical–Gene Interaction Types

Top Top of page Curated Chemical–Gene Interactions

Download: CSV | TSV | XML

Fields:

  1. ChemicalName
  2. ChemicalID (MeSH accession identifier)
  3. CasRN
  4. GeneSymbol
  5. GeneID (NCBI Gene accession identifier)
  6. Organism (scientific name)
  7. OrganismID (NCBI Taxonomy accession identifier)
  8. Interaction
  9. InteractionTypes ('|'-delimited list)
  10. PubmedIDs ('|'-delimited list)

Top Top of page Curated Chemical–Gene Interactions (Structured XML)

Download: XML | XML Schema

Structured XML representations of all curated chemical–gene interactions.

Top Top of page Chemical–Disease Relationships Revised

Download: CSV | TSV | XML

Fields:

  1. ChemicalName
  2. ChemicalID (MeSH accession identifier)
  3. CasRN
  4. DiseaseName
  5. DiseaseID (MeSH or OMIM accession identifier)
  6. DirectEvidence ('|'-delimited list)
  7. InferenceGene
  8. InferenceScore
  9. OmimIDs ('|'-delimited list)
  10. PubmedIDs ('|'-delimited list)

Top Top of page Gene–Disease Relationships

Download: CSV | TSV | XML

Fields:

  1. GeneSymbol
  2. GeneID (NCBI Gene accession identifier)
  3. DiseaseName
  4. DiseaseID (MeSH or OMIM accession identifier)
  5. GeneDiseaseRelation
  6. OmimIDs ('|'-delimited list)
  7. PubmedIDs ('|'-delimited list)

Top Top of page Chemical–Pathway Associations

Download: CSV | TSV | XML

Fields:

  1. ChemicalName
  2. ChemicalID (MeSH accession identifier)
  3. CasRN
  4. PathwayName
  5. PathwayID (KEGG or REACTOME accession identifier)
  6. ChemicalPathwayRelation

Top Top of page Disease–Pathway Associations

Download: CSV | TSV | XML

Fields:

  1. DiseaseName
  2. DiseaseID (MeSH or OMIM accession identifier)
  3. PathwayName
  4. PathwayID (KEGG or REACTOME accession identifier)

Top Top of page Gene–Pathway Associations

Download: CSV | TSV | XML

Fields:

  1. GeneSymbol
  2. GeneID (NCBI Gene accession identifier)
  3. PathwayName
  4. PathwayID (KEGG or REACTOME accession identifier)

Top Top of page Chemicals Revised

Download: CSV | TSV | XML

Each chemical occurs in at least one node of the hierarchy (uniquely identified by the ChemicalTreeNumber). The ParentIDs and ParentTreeNumbers fields may be used to navigate the hierarchy. More

Fields:

  1. ChemicalName
  2. ChemicalID (MeSH accession identifier)
  3. CasRN
  4. ParentIDs (accession identifiers of the parent terms; '|'-delimited list)
  5. ChemicalTreeNumbers (unique identifiers of the chemical's nodes; '|'-delimited list)
  6. ParentTreeNumbers (unique identifiers of the parent nodes; '|'-delimited list)

Instructions for linking to CTD chemical pages.

Top Top of page Diseases Revised

Download: CSV | TSV | XML | OBO

Each disease occurs in at least one node of the hierarchy (uniquely identified by the DiseaseTreeNumber). The ParentIDs and ParentTreeNumbers fields may be used to navigate the hierarchy. More

Fields (non-OBO):

  1. DiseaseName
  2. DiseaseID (primary MeSH or OMIM accession identifier)
  3. AltDiseaseIDs (alternative accession identifiers; '|'-delimited list)
  4. ParentIDs (primary accession identifiers of the parent terms; '|'-delimited list)
  5. DiseaseTreeNumbers (unique identifiers of the disease's nodes; '|'-delimited list)
  6. ParentTreeNumbers (unique identifiers of the parent nodes; '|'-delimited list)

Instructions for linking to CTD disease pages.

Top Top of page Genes

Download: CSV | TSV | XML

Fields:

  1. GeneSymbol
  2. GeneName
  3. GeneDB
  4. GeneID (NCBI Gene accession identifier)

Instructions for linking to CTD gene pages.

Top Top of page Chemical–Gene Interaction Types

Download: CSV | TSV | XML | OBO

This vocabulary is structured as a tree. The ParentCode field may be used to navigate the hierarchy.

Fields (non-OBO):

  1. TypeName
  2. Code
  3. Description
  4. ParentCode