*07/16/2012: Microbes CallAttendees: Mike, Jason, Gavin, Matt, Bill, Tom
Agenda
1) Demo update
2) Phenotype update
3) Microarrays
4) Tree update
5) Other issues
1) Demo update
- On track for building core functionality by mid-August
- Two major services need to be built
- Phenotype reconciliation services
- Tree services
- Invite Steven Brenner’s Grad Student Mike Souza to KBase
2) Tree update by Mike Sneddon
- Working with Fangfang, Terry and Bruce on exchange format
- Common use cases
- have some basic ones
- please contact Mike
- Haven’t heard back from Plants, sent an email to Shiran
- will email Jerming and David Westen
3) Phenotype update from Gavin
- Pulling data from Shewanella for all public and data ok’d by
Duetschbauer
- Excel worksheet that Ben Bowen put together that lists all
environments associated with data
- Waiting on Bruce et al to create loaders
- Still some open questions on the data, working with Duestschbauer:
- Strains with insertions in intergenic areas currently
indistinguishable from wild type in our ER
- Motility experiements
- Missing data
- Stereochemistry for compounds
- Have come up with a couple changes to ER
- add table to allow grouping by plate
4) Microarrays
- Jason Baumohl working on Structured Microarray data
- Matt will discuss some issues with Jason that he’d like to see
5) Other topics
- UI work
- KBase Labs
- Python library location? Email dev list
- August Build!
*
