WBConfCall 2014.01.23-Agenda and Minutes
Models Sign Off
- New model/class: Rnaseq_library - Gary W.
- New model/class: GO annotation model - Kimberly VA.
Status: Under development (Post WS242)
- Additional Func: Gene_cluster - Karen Y.
Status: Tested HX and Curator, any tweaks?.
- If it is not too late Hi I would like to request a simple model change for the ?Expr_pattern model
Add EPIC ?Text Under Type so it will look like: Type Reporter_gene ?Text In_situ Text Antibody ?Text Northern Text Western Text RT_PCR Text Localizome ?Text Microarray ?Microarray_experiment Tiling_array ?Analysis EPIC ?Text
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?
Status for WS242 and ideas for the next one.
Species considered for inclusion
- Necator americanus <= WS242
- Romanomermis culicivorax <= ParaSite
first ParaSite group member started 20th of January ... or so
Helpdesk/Chair - Paul Davis