Difference between revisions of "WBConfCall 2014.01.23-Agenda and Minutes"
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== Models Sign Off == | == Models Sign Off == | ||
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* New model/class: Rnaseq_library - Gary W. | * New model/class: Rnaseq_library - Gary W. | ||
| − | + | Status: Withdrawn | |
* New model/class: GO annotation model - Kimberly VA. | * New model/class: GO annotation model - Kimberly VA. | ||
Status: Under development (Post WS242) | Status: Under development (Post WS242) | ||
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| + | * Additional Func: Strain - Kimberly VA. | ||
| + | Status: Incorporated for WS242 | ||
| + | Change: NCBITaxonomyID UNIQUE Int // Allows for finer grade attachment of NCBItaxon IDs | ||
* Additional Func: Gene_cluster - Karen Y. | * Additional Func: Gene_cluster - Karen Y. | ||
Status: Tested HX and Curator, any tweaks?. | Status: Tested HX and Curator, any tweaks?. | ||
| + | Change: http://wiki.wormbase.org/index.php/WormBase_Model:Gene_cluster#WS242_for_phylogenetic-based_clusters | ||
* Additional Func: ?Expr_pattern simple model addition - Daniela | * Additional Func: ?Expr_pattern simple model addition - Daniela | ||
| − | + | Status: Incorporated for WS242 | |
| − | + | Change: Type EPIC ?Text | |
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== GO::Species Annotation == | == GO::Species Annotation == | ||
Revision as of 12:10, 23 January 2014
Contents
Agenda
New Starters
Sanger WormBase
Models Sign Off
- New model/class: Rnaseq_library - Gary W.
Status: Withdrawn
- New model/class: GO annotation model - Kimberly VA.
Status: Under development (Post WS242)
- Additional Func: Strain - Kimberly VA.
Status: Incorporated for WS242 Change: NCBITaxonomyID UNIQUE Int // Allows for finer grade attachment of NCBItaxon IDs
- Additional Func: Gene_cluster - Karen Y.
Status: Tested HX and Curator, any tweaks?. Change: http://wiki.wormbase.org/index.php/WormBase_Model:Gene_cluster#WS242_for_phylogenetic-based_clusters
- Additional Func: ?Expr_pattern simple model addition - Daniela
Status: Incorporated for WS242 Change: Type EPIC ?Text
GO::Species Annotation
In our annotation file, we currently have (or will have) annotations that reference these taxon IDs:
taxon:273526 Serratia marcescens subsp. marcescens Db11 taxon:652611 Pseudomonas aeruginosa PA14 taxon:474186 Enterococcus faecalis OG1RF
The taxon IDs refer to specific strains of the bacteria used for testing host-pathogen interactions in C. elegans. They are included in GO annotations for terms like "response to Gram negative/positive bacterium".
It looks like we have ?Species objects for each of these bacteria, but corresponding taxon IDs are to the more general 'parent'.
It also looks like we have a ?Strain object, IGX2, for the Serratia strain, but not for the other two bacteria.
How would you like to reference these other taxon IDs? Should we create new ?Species objects that include the strain in the name?
Topic Curation
Status for WS242 and ideas for the next one.
Species considered for inclusion
- Necator americanus <= WS242
- Romanomermis culicivorax <= ParaSite
ParaSite
first ParaSite group member started 20th of January ... or so
Minutes
Helpdesk/Chair - Paul Davis
