Difference between revisions of "WBConfCall 2021.11.18-Agenda and Minutes"

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= Agenda and Minutes=
 
= Agenda and Minutes=
 
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== Check status of GO_annotation patch file for WS283 ==
 +
* Upstream changes to evidence codes resulted in missing evidence for IEA annotations imported from UniProt
 +
* Patch .ace file produced with corrected evidence
 +
* Status of WS283 data?
  
 
= Helpdesk =
 
= Helpdesk =
 +
* C. elegans codon usage table? [https://github.com/WormBase/website/issues/8459 #8459] - [Hinxton]/[DG+PD] looking into possible solution for codon usage tables from ensembl databases.
 +
  web resources
 +
  1. C. elegans II. 2nd edition - Appendix 3 Codon Usage in C. elegans (https://www.ncbi.nlm.nih.gov/books/NBK20194/)
 +
  2. https://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=6239
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* Annotating a whole genome sequence of Parelaphostrongylus tenuis [https://github.com/WormBase/website/issues/8455 #8455] [PD] - Followup, Handover to [DG] WBPS
 +
* the meaning of "PRJNA..." and "PRJEB..." [https://github.com/WormBase/website/issues/8458 #8458] [PD] - Resolved
 +
* How can I get the size of thousands of genes and their the largest CDSs? [https://github.com/WormBase/website/issues/8460 #8460] [PD] - Responded and suggested a WormMine xml query for CDS size and Gene. - Resolved
 +
* gene entries for B. malayi genes? I searched for Bma-daf-2 and Bma-ftt-2 and the gene reports aren't there anymore. [https://github.com/WormBase/website/issues/8461 #8461] Bma-daf-2 vs Bm-daf-2? [PD] - Ortholog name transfer is subject to churn advised user of the gene accessions for the records and confirmed the names are reinstated or changed for WS283. - Resolved.

Latest revision as of 10:59, 22 November 2021

Agenda and Minutes

Check status of GO_annotation patch file for WS283

  • Upstream changes to evidence codes resulted in missing evidence for IEA annotations imported from UniProt
  • Patch .ace file produced with corrected evidence
  • Status of WS283 data?

Helpdesk

  • C. elegans codon usage table? #8459 - [Hinxton]/[DG+PD] looking into possible solution for codon usage tables from ensembl databases.
 web resources
 1. C. elegans II. 2nd edition - Appendix 3 Codon Usage in C. elegans (https://www.ncbi.nlm.nih.gov/books/NBK20194/)
 2. https://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=6239
  • Annotating a whole genome sequence of Parelaphostrongylus tenuis #8455 [PD] - Followup, Handover to [DG] WBPS
  • the meaning of "PRJNA..." and "PRJEB..." #8458 [PD] - Resolved
  • How can I get the size of thousands of genes and their the largest CDSs? #8460 [PD] - Responded and suggested a WormMine xml query for CDS size and Gene. - Resolved
  • gene entries for B. malayi genes? I searched for Bma-daf-2 and Bma-ftt-2 and the gene reports aren't there anymore. #8461 Bma-daf-2 vs Bm-daf-2? [PD] - Ortholog name transfer is subject to churn advised user of the gene accessions for the records and confirmed the names are reinstated or changed for WS283. - Resolved.