Difference between revisions of "WormBase-Caltech Weekly Calls"
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[[WormBase-Caltech_Weekly_Calls_March_2011|March]] | [[WormBase-Caltech_Weekly_Calls_March_2011|March]] | ||
− | ==April | + | ==April 2011 Meetings== |
+ | |||
+ | |||
+ | ==April 7, 2011== | ||
+ | |||
+ | |||
+ | Transgene Model | ||
+ | *On Wiki | ||
+ | *Sent out to people | ||
+ | *Have a look; report any concerns | ||
+ | *Can follow on BitBucket; search for transgene; link to Wiki | ||
+ | *No objections at Caltech; Karen will send to Paul Davis | ||
+ | *Changes to ACE dumping script; Karen will talk to Juancarlos | ||
+ | *Changes needed in OA (softer deadline than dump) | ||
+ | |||
+ | |||
+ | Interactions | ||
+ | *Murky genetic interaction curation? | ||
+ | *Err on the side of generality/trusting author statements | ||
+ | *When in doubt, curate as "genetic interaction" | ||
+ | *Chris is working on decision tree/pipeline for curation | ||
+ | *Kimberly working on Physical Interaction model | ||
+ | |||
+ | |||
+ | BioGRID meeting at Princeton in May | ||
+ | *Call in | ||
+ | *What will Rose propose? | ||
+ | |||
+ | |||
+ | Expression Pattern Curation (Daniela/Wen) | ||
+ | *Daniela sent out picture page for review | ||
+ | *Expr Pattern OA wiki is in place: | ||
+ | **http://wiki.wormbase.org/index.php/Expression_Pattern | ||
+ | *As soon as Juancarlos is done with the modularization will start working on the code. | ||
+ | *In the meanwhile Daniela will curate expression pattern writing .ace files | ||
+ | *Expr_pattern OA should be ready by the next upload (May26th). | ||
+ | |||
+ | |||
+ | Patch file/Interbuild (Raymond) | ||
+ | *Developed good patch file | ||
+ | *Tested patch file to update WS224 to WS225 - seems OK | ||
+ | *Less than 5 minutes for upload | ||
+ | *Testing now should be done by Todd/OICR team | ||
+ | |||
+ | |||
+ | Uma started | ||
+ | *Working on concise descriptions of gene classes | ||
+ | *Karen has reviewed with Uma; Uma is reading papers | ||
+ | *Discussing details of descriptions | ||
+ | *Inconsistencies/discrepancies of gene class names | ||
+ | *>2400 gene classes | ||
+ | *Can work on generating formula for this curation | ||
+ | *Arun can help with automation | ||
+ | *May need to get Uma an interface to enter data into postgres | ||
+ | *Adapt concise description CGI for her? | ||
+ | *Gene class name and a text field | ||
+ | *Using Textpresso/WormMart output; sentence saver? | ||
+ | |||
+ | |||
+ | eggNOG data into citace? | ||
+ | *Who's going to handle the data? curate? | ||
+ | *Michael? OK |
Revision as of 22:50, 7 April 2011
2011 Meetings
April 2011 Meetings
April 7, 2011
Transgene Model
- On Wiki
- Sent out to people
- Have a look; report any concerns
- Can follow on BitBucket; search for transgene; link to Wiki
- No objections at Caltech; Karen will send to Paul Davis
- Changes to ACE dumping script; Karen will talk to Juancarlos
- Changes needed in OA (softer deadline than dump)
Interactions
- Murky genetic interaction curation?
- Err on the side of generality/trusting author statements
- When in doubt, curate as "genetic interaction"
- Chris is working on decision tree/pipeline for curation
- Kimberly working on Physical Interaction model
BioGRID meeting at Princeton in May
- Call in
- What will Rose propose?
Expression Pattern Curation (Daniela/Wen)
- Daniela sent out picture page for review
- Expr Pattern OA wiki is in place:
- As soon as Juancarlos is done with the modularization will start working on the code.
- In the meanwhile Daniela will curate expression pattern writing .ace files
- Expr_pattern OA should be ready by the next upload (May26th).
Patch file/Interbuild (Raymond)
- Developed good patch file
- Tested patch file to update WS224 to WS225 - seems OK
- Less than 5 minutes for upload
- Testing now should be done by Todd/OICR team
Uma started
- Working on concise descriptions of gene classes
- Karen has reviewed with Uma; Uma is reading papers
- Discussing details of descriptions
- Inconsistencies/discrepancies of gene class names
- >2400 gene classes
- Can work on generating formula for this curation
- Arun can help with automation
- May need to get Uma an interface to enter data into postgres
- Adapt concise description CGI for her?
- Gene class name and a text field
- Using Textpresso/WormMart output; sentence saver?
eggNOG data into citace?
- Who's going to handle the data? curate?
- Michael? OK