spencersteers / ecmatlas

Senior Design - ECM Atlas

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Fetch Uniprot ID's for proteins

spencersteers opened this issue · comments

Programmatic access guide: http://www.uniprot.org/help/programmatic_access

Example query for gene col1a1 to get id: http://www.uniprot.org/uniprot/?query=gene:col1a1+AND+organism:rat&format=tab

Look up how to make http queries in python and how to iterate through a tab delim string.

  • Link proteins in database to a uniprot identifier
  • Provide a link to Uniprot for each protein
  • Fetch Uniprot protein descriptions and insert into database (might be done with wikipedia now #16 )
  • Allow for fetched Uniprot protein descriptions to be changed and updated (might be done with wikipedia now #16)