Difference between revisions of "WBConfCall 2023.02.02-Agenda and Minutes"

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* [https://docs.google.com/presentation/d/1ccngyU4jlpRGCP559YeoapcunWuM4suo/edit?usp=sharing&ouid=113670013925028927521&rtpof=true&sd=true Presentation] on adding FFRGS headers to Reference Genome Files
 
* [https://docs.google.com/presentation/d/1ccngyU4jlpRGCP559YeoapcunWuM4suo/edit?usp=sharing&ouid=113670013925028927521&rtpof=true&sd=true Presentation] on adding FFRGS headers to Reference Genome Files
 
* [https://drive.google.com/file/d/1SSmCte5rEt558PV9OyviUqwEkxnlEgaL/view?usp=share_link FASTA header manuscript as of Feb 2 2023]
 
* [https://drive.google.com/file/d/1SSmCte5rEt558PV9OyviUqwEkxnlEgaL/view?usp=share_link FASTA header manuscript as of Feb 2 2023]
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=== Support for 'non-canonical' species at the Alliance ===
 +
* The A-Team is increasingly dealing with technical issues surrounding support for 'non-canonical' species (those species other than the main 8 currently supported at the Alliance)
 +
* There is the question of to what extent these need to be supported (or constrained) in the persistent store and curation tool
 +
* Another question is to what extent these non-canonical species need to be supported in the public website and APIs
 +
* It would be good to have a general discussion at the Alliance about what kind of support we envision:
 +
** Do we want standard Alliance gene pages for all genes from non-canonical species?
 +
** Do we want non-canonical species to only be supported on Alliance pages for entities like genes from the related model organism clade/group?
 +
** Do we want/need to support curation to entities from non-canonical species?
 +
** Do we need to establish something like the Tier system at WormBase: Tier I, Tier II, etc.?

Latest revision as of 17:52, 2 February 2023

Agenda and Minutes

Help Desk

  • Issue #8929: Is there a way to find out when these genetic position were assigned and whether these gets updated with more recent mappings?
  • Issue #8926: The protein alignments would be more useful if the residue number was indicated at the end of each row of the orthologous protein entry, for each block of sequence shown.
  • Issue #8925: Long read transcript data for the S. ratti genome.
  • Issue #8919: In 2020, we corrected gene annotations of the nematode Pristionchus pacificus.
  • Issue #8907: WBPaper00063926 has no title in ACeDB. The paper title exists in postgres but not in ACeDB. In WS287, there are 8 papers from MEDLINE that have no title.


Paper : "WBPaper00062581"
Paper : "WBPaper00062601"
Paper : "WBPaper00062690"
Paper : "WBPaper00063926"
Paper : "WBPaper00063988"
Paper : "WBPaper00063989"
Paper : "WBPaper00064290"
Paper : "WBPaper00064498" -- this paper got title in citace that was uploaded for WS288

Agenda

Support for 'non-canonical' species at the Alliance

  • The A-Team is increasingly dealing with technical issues surrounding support for 'non-canonical' species (those species other than the main 8 currently supported at the Alliance)
  • There is the question of to what extent these need to be supported (or constrained) in the persistent store and curation tool
  • Another question is to what extent these non-canonical species need to be supported in the public website and APIs
  • It would be good to have a general discussion at the Alliance about what kind of support we envision:
    • Do we want standard Alliance gene pages for all genes from non-canonical species?
    • Do we want non-canonical species to only be supported on Alliance pages for entities like genes from the related model organism clade/group?
    • Do we want/need to support curation to entities from non-canonical species?
    • Do we need to establish something like the Tier system at WormBase: Tier I, Tier II, etc.?
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