wiki:PomBasePlanningMeetingMinutes20121217

Version 4 (modified by val_wood, 9 years ago) (diff)

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Planning Meeting Tuesday 17 Dec 2012 - Minutes


Agenda for this meeting


Tuesday 17 Dec, 10:00, EBI

Present: Val, Midori, Mark, Dan, Paul
Remote: Kim, Jürg
Chair: Val
Minutes: Mark

Usage stats

Previous Action Items To Carry Forward

  • Action: Curators look into acquiring data from strain collection in Japan (Now moved to Curation tracker)
  • AI Organise a large general "PomBase" banner
  • Demo of curation tool (postponed)
  • Send papers to Paul K.
  • AI Val/curators will start to send out a large number of community curation sessions
  • AI Sam's data, decided to add "condition" Val will contact Sam, also need to add PMID and chase "quiescence term", then decide where this data should live (decided Kims ftp directory or pombase-embl)

General

  • Val to continue providing Browser feedback to Gulietta AI VAL chase up pombe community browser feedback as have not responded to recent requests
  • Discussion about synching of gene names and GO term names when chado version is updated. AI Mark takes some time to consider the order of the loading for GO term names and gene names
  • Finish the final items for the decommissioning of the GeneDB site. AI Val to chase up motif search code from Sanger
  • Discussion about new home page

  • Discussion about EMBL submission file

  • Organisation for Pombe2013 Jurg suggested that PomBase? funded the poster refreshments and would get a stand and a talk slot to promote community curation Val suggested trying to get WT small meeting funding for this (on behalf of PomBase?) AI Look into this and forward details to Jurg
    • Stand (£2000)
      • Banners
      • Posters
      • ?Freebees?
    • ?Poster Drinks? - Potential funding

Curation update

Curators have targeted older publications and increased curation volume (papers) from 338-432

Jira tracker update =

  • The rest of the meeting was devoted mainly to the Jira update, prioritising task for GeneDB decommissioning, V 31,32,33
    • AI Val/Midori? to look into where UTR.fasta data came from

New Action Items

  • VW chase up pombe community browser feedback as have not responded to recent requests
  • Redesign of the PomBase front page.
    • VW open new jira item with mock up
    • VW: Source some images of cells that could be used.
    • VW: Highlight specific papers to display on the front page
    • MM: Convert to a multi-column format.
  • MM: Load the transcriptome datasets listed on JIRA
  • MM: Update xref names before running the update annotation scripts.
  • MM takes some time to consider the order of the loading for GO term names and gene names (related to above)
  • PK/DS/MM: EMBL submission files. Work out what is going to happen with these going forward (for this Val will first test how close the current file is )
  • Search:
    • MM: Auto-regenerate the search indexes and get ES to set up a new domain and index the PomBase dumps.
    • MM: Get the simple search to include the orthologues.
    • All curators: discussion to nail down what search options and behaviour we really want, then update Jira
    • VW to chase up motif search code from Sanger
  • KR: Generate v31 Chado dump
  • DS/MM: GFF and GTF usage standardisation in ensembl for downloads. Needs assigning.
  • KR: Work on the Session Management for the curation tool.

AOB

  • Future meetings to review what data there is available and to discuss what to load.
  • Next Meeting: 21st Jan 2013