WormBase-Caltech Weekly Calls
From WormBaseWiki
2012 Meetings
February 2, 2012
EPIC data into WormBase
- Daniela spoke to John Murray
- Need to modify model and display for data
- 3D movies as ?Movie objects
Endrov
- Tom Burglin and student Johan Henriksson developed Endrov.net (http://www.endrov.net)
- May be able to incorporate Endrov visualizations of Blender model and cell lineage into WormBase website?
- Need to talk to Todd and Web team
Elsevier legal issues
- Science-direct website links to-and-from WormBase website
- Daniela still working with contacts at MGI (Mouse Genomics Institute/Jackson Labs) & Elsevier
- MGI already has established links with Elsevier
New ?Interaction model
- Update old objects and speak to web team about new model before officially incorporating new ?Interaction model
February 9, 2012
Interaction model
- Added some XREFs (in Interactor tag) and Chromatin_IP to Detection method
- Co-Immunoprecipitation would be captured under Detection method "Affinity Capture Western"
- Worked out changes needed for old *.ACE files to fit new model; will give to Juancarlos to script
Transgene
- Daniela, Juancarlos, and Karen imported Extrachromosomal array transgenes into the Transgene OA
- Extrachromosomal array transgenes for which authors have not provided a name will be named Expr####_Ex
- Maybe we will name according to paper e.g. "WBPaper########_Ex####"
- Daniela and Karen will discuss cost-benefit of objectifying Ex transgenes
- Rather than determine transgene sequence (or partial sequence), curators will (as they have been) add free-text describing the sequence
- This includes: primer sets, restriction digest sites, etc.
- Continue to place this info in the Reporter_gene tag
- Maybe add an additional free-text field (Sequence_info tag?)
