Manager 03September2014: Difference between revisions

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*David: continue to get sourceforget items down, and get  
*David: continue to get sourceforget items down, and get  
*Suzi - the order of the card should reflect priority. come off when it is done.
*Suzi - the order of the card should reflect priority. come off when it is done.
====Common annotation framework (Chris)====
*Notura - beta test released. Can create a title to a new model. Create a new model. Working on LEGO example.
*Authentification - is working now. Take it off from the board.
*Rama-enrichment tool lacking some of the nice feature. When will be improved.
*Chris - soon.
====Outreach and usability (Rama)====
*GO help - 1 email a day.
*google analytics - Amigo - 20K sessions first month, 8000 users
**Suzi: Anyway to tell internal from external?
**Rama: Not yet.
*Will show full results at the barcelona meeting
*Moni has made a video for the GO website.
*Annotation advocay - documents for new groups to create annotation, but has not trained new annotation groups in the last quarter.
**Rachel - Prudence will give training to (?)
*RCA annotation - review and remove.
**Chris- use a script?
**Judy - still need manual review to see if there are new evidences.
**Paul T. - a script may help find new evidences.
====PAINT curation (Huaiyu)====
*Jamboree still going, but slow. Marc is the biggest contributor.
*New PANTHER build to support the current version of reference proteome is underway.
**The targeted release date is the end of year.
** It will have around 100 genomes, which includes the current 86 genomes, and 20 new plant genomes. However, we will remove a few low quality genomes. Suzi may be able to provide a few examples.
**Suzi: Only see it in a limited number of families. What if it is bad in the family, but fine in the others?
**Huaiyu: We will compile the list, and probably use a script to check across the entire library.
**Suzi: We should communicate this to the reference proteome team.
**Paul T.: Yes this is the plan.

Revision as of 13:08, 3 September 2014


On call:

Trello Board Link:

https://trello.com/b/IdtTLGEt/go-priorities

Additional Agenda Items

  • ECO development? It has been very slow.

Minutes

ECO development

  • Rama: protein2go displays ECO code for evidence. It is slow to add.
  • David: Is the project still funded?
  • Pascale: Submitted 20+ terms with definition back in June. Still haven’t heard anything back from Marcus.
  • Suzi: Continue to work with Marcus.

Trello board updates

  • Suzi: Trello board - anything needs to be discussed, not completed in the same day, should be added to the Trello board. Take it off when it is completed.

Ontology update (David)

  • Triage SF items - Paola almost finish the sourceforge minutes.
  • Protege testing - It is working. Still use OBO-edit with OBO file. For more complicated file, convert it to owl file and open it with Protege, and then convert back to OBO.
    • Chris asked why not using Protege all the time.
    • David: OBO editor has better visualization, and is easier to use.
  • pattern/template development - get reasoning to work in part-of inference. Sometimes it is difficult, eg., myocardium is part_of heart, but development of myocardium is not part of development of heart.
  • Assess PT's plan on MF change - David OS is working on it.
  • Cell cycle ontology fixes - Jane introdices phases of cell cycle.. pretty close to be completed.
  • protege5 - switch soon
  • protein binding - continue to work on it.
  • small protein - rama will update at the next call. ubiquitin ligase
  • LEGO example - like to use noctura for col 16 data. problem is where to get resource for that.
  • Judy - what is the highest priority?
  • David: continue to get sourceforget items down, and get
  • Suzi - the order of the card should reflect priority. come off when it is done.

Common annotation framework (Chris)

  • Notura - beta test released. Can create a title to a new model. Create a new model. Working on LEGO example.
  • Authentification - is working now. Take it off from the board.
  • Rama-enrichment tool lacking some of the nice feature. When will be improved.
  • Chris - soon.


Outreach and usability (Rama)

  • GO help - 1 email a day.
  • google analytics - Amigo - 20K sessions first month, 8000 users
    • Suzi: Anyway to tell internal from external?
    • Rama: Not yet.
  • Will show full results at the barcelona meeting
  • Moni has made a video for the GO website.
  • Annotation advocay - documents for new groups to create annotation, but has not trained new annotation groups in the last quarter.
    • Rachel - Prudence will give training to (?)
  • RCA annotation - review and remove.
    • Chris- use a script?
    • Judy - still need manual review to see if there are new evidences.
    • Paul T. - a script may help find new evidences.

PAINT curation (Huaiyu)

  • Jamboree still going, but slow. Marc is the biggest contributor.
  • New PANTHER build to support the current version of reference proteome is underway.
    • The targeted release date is the end of year.
    • It will have around 100 genomes, which includes the current 86 genomes, and 20 new plant genomes. However, we will remove a few low quality genomes. Suzi may be able to provide a few examples.
    • Suzi: Only see it in a limited number of families. What if it is bad in the family, but fine in the others?
    • Huaiyu: We will compile the list, and probably use a script to check across the entire library.
    • Suzi: We should communicate this to the reference proteome team.
    • Paul T.: Yes this is the plan.