Difference between revisions of "WormBase-Caltech Weekly Calls"

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== December 6, 2018 ==
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== December 13, 2018 ==
  
 
=== Protege Tutorial ===
 
=== Protege Tutorial ===

Revision as of 16:24, 13 December 2018

Previous Years

2009 Meetings

2011 Meetings

2012 Meetings

2013 Meetings

2014 Meetings

2015 Meetings

2016 Meetings

2017 Meetings


GoToMeeting link: https://www.gotomeet.me/wormbase1


2018 Meetings

January

February

March

April

May

June

July

August

September

October

November


December 6, 2018

SObA for disease (& other ontology?) annotations

  • Next Alliance all-hands call in February, present SObA for Skunkworks (innovation talks)?
  • SObA top-slicing (summary view) gets tricky; Raymond looking into better solutions, if available
  • SObA summary could be redundant with ribbon? SObA would provide dynamic, trimmed nodes

Worm phenotype ontology

  • Meeting today at 12pm Pacific, 3pm Eastern
  • In process of adding back obsolete terms to the ontology
  • Question about "has_obo_namespace" attribute; not required for ODK process; used by WB pipelines?

ISB Meeting, Cambridge, UK, April 2019

  • Abstracts from WB?
    • New Author First Pass - Daniela, Valerio, Kimberly, et al.
    • Automated gene descriptions - Ranjana, gene description working group

GO expression data using Uberon anatomy terms

  • Some GO curators curating C. elegans expression annotations (from synapse annotation project) to Uberon anatomy terms, not WBbt terms
  • Kimberly will look into enforcing Noctua editor to use C. elegans anatomy ontology when creating C. elegans annotations
  • Can possibly perform automated mapping if appropriate cross-references exist
  • Kimberly has already found annotations to inappropriate Uberon terms


December 13, 2018

Protege Tutorial

Updates to Gene Regulation OA

  • Removed two unused fields/tables: Trans-regulator Seq and Trans-regulated Seq
  • Now a single field for anatomy, life stage, and subcellular localization (SCL) (as opposed to a set of each for each type of regulation result)
  • May require ?Interaction model change if anatomy, lifestage, and/or SCL to be annotated without a result type