Data Source List
  • MeSH term annotate relevant
  • Neuronames stats
  • UMLS relevant sections
  • Brain
    • GENSAT
    • Allen Brain Atlas
      • proprietary interface
  • Disease
    • OMIM
      • downloaded (Feb 2007)
    • Medical Reference
  • Experimental Literature
    • PubMed/MEDLINE
      • testing can use date cutoff
  • Genes
    • Entrez Gene
      • downloaded (Feb 2007)
    • SWISS-Prot
    • Transcription Factors
      • TFCat
      • TF Encyclopedia
  • Terms
    • Vocabularies
      • MeSH (hierarchical)
      • OMIM terms
      • SWISS-PROT terms
      • Neuronames
        • human and macaque brain
        • neuroanatomical terms
        • describes structure
        • synonyms
    • UMLS
      • Unified Medical Language System
      • includes Neuronames and MeSH
      • multi-purpose
      • multi-lingual
      • comes with application Metamorphosys to filter: Customizing UMLS
      • can output database load script
      • submitted license
        • received DVD disk
        • SNOMED CT (Clinical Terms) requires separate licence
          • Canada Infoway?
    • Ontologies
  • Expression
    • mouse
      • mouse Gene Expresion Database (GXD)
      • Mouse Atlas
        • SAGE data
  • Disease to Literature
    • PubMed references in plain text
  • Genes to Terms
    • Entrez GO annotation
    • SwissProt Terms
  • Expression to Phenotype
    • GXD MPO annotation
  • Gene to Gene
    • Sequence Similarity
      • BLAST (any-to-any)
      • HomoloGene (between organisms)
  • Expression to Terms
    • SAGE data to brain location
  • Literature to Terms
    • PubMed MeSH term annotation
    • GoPubMed PubMed to GO
      • appears to be straight text match
    • PubCloud PubMed Neuroname text match (Leon)
  • Literature to Genes
  • TODO
    • Text match PubMed to ontologies
    • Match/map vocabularies/ontologies
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