07/16/2012: Microbes Call
Attendees: 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
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Two major services need to be built
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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
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Common use cases
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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
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Still some open questions on the data, working with Duestschbauer:
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Strains with insertions in intergenic areas currently indistinguishable from wild type in our ER
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Motility experiements
- Missing data
- Stereochemistry for compounds
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Have come up with a couple changes to ER
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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!