Hinxton 2015.08- Meeting minutes

August 2015

August 6, 2015

In attendance: KH, PD, MP, TD, BB

General

• Build 250
  • In progress. MP doing all 9 core species (no precedent for this).
  • First build from github code base (no problems so far)
  • How long will BLAST for all 9 species take (all BLASTX and BLASTP will need to be re-done, since all of the worm proteomes have changed)
  • Problems
    • RNAis with bad DNA_text. Cleaned and reported to Caltech
    • NCBI taxonomy database at EBI changed location, config needed a patch

• Data integration / curation
  • B. malayi
    • WS248 Brugia submission now live at ENA
    • Gene prediction on new assembly
      • Looking at RATT transfers from old assembly
      • Using HAL mapping to project genes also works quite well.
      • AUGUSTUS to fill in the gaps
    • Handover will be Monday 10th August (during Brugia conference call)
  • C. remanei
    • Bad data. Submitter does not have time right now to clean. Will be deferred from this build
  • General
    • Hawaain strain - will go in as T3. BLASTable.
    • Cleaning up T2. Getting rid of in-frame STOPs for P. pacific us
    • Cleaning up Brief_identifcation for protein-coding and pseudogenes.

• Database migration
  • New interface for uploading ace files.
  • Discussed potential strategies for schema updates

• ParaSite
  • New release out
  • BLAST
    • Fixed glitches in new service
    • Discussed potential minor improvements to font page
  • Analytics
  • Redesign of the home page. Make it more WormBase compliant.
  • Search box confusion