Difference between revisions of "WormBase-Caltech Weekly Calls"

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[[WormBase-Caltech_Weekly_Calls_June_2021|June]]
 
[[WormBase-Caltech_Weekly_Calls_June_2021|June]]
  
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[[WormBase-Caltech_Weekly_Calls_July_2021|July]]
  
== July 1, 2021 ==
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[[WormBase-Caltech_Weekly_Calls_August_2021|August]]
  
=== Importing genes for tm alleles from GeneACE ===
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[[WormBase-Caltech_Weekly_Calls_September_2021|September]]
* https://github.com/WormBase/website/issues/8262
 
* Nightly dump currently excludes tm allele genes
 
* Most tm (Mitani) alleles are not being manually connected to specific genes in GeneACE
 
* Should pull the data from WS release (into Postgres) after the build has mapped the alleles to genes
 
* ~100,000 alleles in Postgres; ~70,000 don't have a gene connection
 
* Would Hinxton be willing to take WS-mapped allele-to-gene associations and populate GeneACE with associations not already in there?
 
  
=== Citace upload ===
 
* Curators upload files to Spica for citace upload on Tuesday (July 6)
 
  
=== Chen B1 kitchen Usage Considerations ===
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== October 14, 2021 ==
* Clean up after oneself.
 
* Mark food storage with name and date.
 
* Mark storage drawers
 
* Consumables
 
  
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=== WormBase HD YouTube channel has ads ===
 +
* Is there a way to turn them off? Seems like we cannot remove them entirely
  
== July 8, 2021 ==
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=== Form headers and footers no longer updating ===
 
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* WS version number falls out of date; Juancarlos will manually update
=== Alliance work ===
 
* Orange team presenting initial plans at Alliance PI meeting tomorrow
 
* What working groups are still meeting? What are their responsibilities?
 
** Expression
 
** Variants
 
** Disease & Phenotype
 
** Technical working groups
 
*** Technical call
 
*** Data quartermasters
 
*** DevOps
 
* Expression working group working on LinkML model with Gil (FB)
 
** Includes work on antibody class, image class, movie class
 
** Are species-specific anatomy ontologies being utilized for expression annotations or still just Uberon?
 
* Creating a curation interface/tool:
 
** Will require loading auxiliary data types in addition to primary data types (e.g. if we are focused on disease annotation curation, we will need to load genes, alleles, strains, etc. in addition to the disease annotations themselves) to be available to make connections to
 
** One requirement already expressed by curators is the need to generate new entities, like alleles, and have them quickly (immediately?) available for use in curation
 
** Maybe this could be handled by an Alliance central name server that mints new IDs (Alliance IDs and maybe also MOD IDs?) for the objects to make them available (also with a mechanism for these new objects/IDs to make their way back to the MODs as well)
 
** Micropublication curation forms have tackled a lot of issues of collecting lexica and entity names and IDs; should consider work already done with Micropubs
 

Revision as of 18:27, 14 October 2021

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October 14, 2021

WormBase HD YouTube channel has ads

  • Is there a way to turn them off? Seems like we cannot remove them entirely

Form headers and footers no longer updating

  • WS version number falls out of date; Juancarlos will manually update