Things to test for each release

Check that each item works and/or is displayed as expected.

Gene Pages

Check each section; pka1 has examples of almost everything listed. TO DO: Fill in other genes as examples for anything not on pka1 page.

• Sequence download section working (protein, DNA etc)
• References resolve correctly
• All ontology sections: check extension display
  • ontology terms (GO, SO, etc.) show term name, hyperlinked appropriately, and with ID in mouseover
    • Ste11 has SO and PR and genes linked, mal1 links to chebi, trx1 has PR: in phenotype)
  • correct relation displayed (e.g. input_for should only appear in Target Of section)
  • pombe gene name hyperlinked to gene page (systematic ID displayed only for genes that don't have standard names)
• GO
  • ensure NOT annotations are not included in totals or in slim (for example rae1 NOT mitotic spindle assembly checkpoint vs regulation of mitotic cell cycle slim term)
  • 'with' column entries link correctly
• Protein family data rendered correctly
  • Are protein family labels present?
  • Has anything new appeared in this section?
• check orthologs
  • for example SPBC21B10.05c MLST8
• check that data from a new curation session has gone in
  • V41 - ​http://curation.pombase.org/pombe/curs/87ce105a27640d77/ro/
  • V46 - PMID:14596912
  • V47 - ​http://curation.pombase.org/pombe/curs/3c4b277977998eee/ro/
  • V55 - PMID:25417108
  • V56 - ​http://curation.pombase.org/pombe/curs/897ea00b9e24c756/ro
• check that data from a new phaf has gone in
  • V42 - PMID_16169489_phaf
  • V46 - PMID_20625380_phaf.tsv
  • V47 - PMID_21340088_phaf.tsv PMID_24727291_phaf.tsv
  • V57 15821139
• check for other annotations types
  • V58 - GEO dataset external ref on atf1 page "WT overexpression expression profiling; db_xref=GEO:GSE71820""
• TO DO: Fill in additional things to look for here

Browser

• Comparative data displayed sensibly
• Check that each track type 'nucleosome positioning' 'polyA' etc are working
• Sensible track labels
• Multiple alignment viewer works for Compara trees

Website (static and autogenerated pages)

• GO slim is present and updated
• Advanced query is functioning
  • GO querying (and that numbers agree with slim)
  • FYPO querying working
• Motif search working

Download data

• check that all of the downlaod files on the ftp site are i) archived ii) updated correctly
  • spot check some file contents