Procedure for selection of target genes

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This is in progress: please fill in any information you find useful as you use this page. Also, if we change our guidelines this will be reflected here.

Rotation Order

This is the list of which group is responsible for selecting curation targets for the next year:

  • November 2007: Arabidopsis thaliana
  • December 2007: Caenorhabditis elegans
  • January 2008: Danio rerio
  • February 2008: Dictyostelium discoideum
  • March 2008: Drosophila melanogaster
  • April 2008: Escherichia coli
  • no date Gallus gallus (skipped!)
  • Oct 2008: Homo sapiens
  • TBA: Mus musculus
  • TBA: Rattus norvegicus
  • TBA: Saccharomyces cerevisiae
  • TBA: Schizosaccharomyces pombe

Guidelines

  1. Try to select related genes (same pathway, same disease, same gene family)
  2. Check that the gene is not already done (easiest to search by UniProt ID)
  3. Enter all ID in the Master Table. The Human Genome Nomenclature Committee's site is a nice source for those IDs, HGNC search tool. Please separate all names by commas and remove any non-required character (tabs, line feed, etc)
  4. For disease genes, enter the OMIM ID of the disease or a PMID of a paper describing the gene's implication in a disease

Disease genes

(also in the 'Suggestion' google spreadsheet; please mark those you select)

Conserved Human-E.coli

  • list of genes is in the 'Suggestions' spreadsheet (look for the "conserved Hs-Ec" sheet)
  • enter the ensemble ID in YOGY
  • find the UniProt ID from the YOGY summary tables
  • check the 'master list' to make sure the gene has not previously been selected

Bleeding edge genes

Biochemical/signaling pathways

Try picking 5 genes form the same pathway