wiki:PombasePlanningMeetingAgenda25112015

PomBase Planning Meeting 27/5/ 2015

Action item review

New Agenda items

How to handle consensus UTRs and non-coding RNAs

  • Q should we do it? how useful is it? How should we decide which datasets to use? (Need Jurg's input on this.)

Upcoming Priorities

Immediate jira priorities

(from pombase.internal e-mail)

  1. Address tickets related to the various Query Builder download options which have been frequently requested:
    • a) Genotypes (Midori is working on the formats for these, which will be along the lines of the new GO GPI/GPAD, so this one can come last) Should be similar to f) below. We will open a ticket for this under the same parent PB-232
    • b) PB-237 Interactors (genetic or physical)
    • c) PB-1435 Orthologs (human or cerevisiae)
    • d) PB-233 Ability to select which columns/data you want in the download
    • e) PB-235 The sequence retrieval options on the gene page
    • f) PB-234 GAF retrieval

Major sequence and feature overhaul (probably Feb)

Need to

  • make revisions to sequence proposed by broad and confirmed by Li-Lin DU
  • revise gene structures accordingly
  • merge in telomeric contig
  • See if Robin (or anyone) has sequence to fill telomeric gaps
  • revise UTRS and non coding RNA structures
  • etc

Issues

  • What to do about mating type region fo reference strin
  • What to do about mozaic nature of sequence (problems for EMBL submission)
  • Making and EMBL dump, ensuring the RNAs and Protein info required by UniProt? and RNA central is present
  • etc
  • planning to synchronise with EG

Canto update

  • Nearly ready to release new intelligent AE interface

Curation progress

Item March 2013 April 2013 May 2013 Aug 2013 May7 2014 July 23 2014 Oct 2014 March 2015 May 2015 Nov 2015
All publications 9755 9761 9773 9989 10356 10400 10522 1069310797 11035
Curatable publications 4735 4740 4780 4896 5017 5070 4873 49745053 5172
Publications with Approved sessions 580 600 647 712 1083 1187 1598 19832123 2344
Publications with active sessions 245 247 265 246 220 246 225 146148 142
Publications with session needing approval 14 4 4 18 6 11 19 42 9
community curatable publications - - - 351 526 613 733 8591008 1240
community curated publications with approved sessions - - - 58 159 178 207 253270 348
curatable publications without sessions - - - 3730 3256 3177 2518 24132371 2129

Community curation

  • PomBAse will be involved in a community curation workshop/panel at ISB conference
  • Need to make videos (was awaiting multi-gene phenotypes and AE implementation)
  • Then we will target non-participating labs

Agile browser

  • can we evaluate?

Next planning meeting

AOB

  • Val Noctua meeting
  • Pombe primer, well received
Last modified 5 years ago Last modified on Nov 24, 2015, 6:06:31 PM