Difference between revisions of "WormBase-Caltech Weekly Calls"
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== January 8, 2015 == | == January 8, 2015 == | ||
| + | |||
| + | === Community annotation=== | ||
| + | * author participation | ||
| + | **Cecilia: still lots of work to process data, need to process data submitted by authors | ||
| + | ** old data kept for history and for comparison | ||
| + | ** people mess up institution names - is being changed to a controlled vocabulary | ||
| + | ** campus addresses also not standardized - organize/create address fields, e.g., street address, mail-code, etc., | ||
| + | ** add example address | ||
| + | ** ~10 author submissions a week | ||
| + | ** most curation is extracting people information from papers (~800 week), as automated as possible right now - people and affiliation are extracted from xml, but still needs to be parsed | ||
| + | ** how to mine author data from other sources (institution, laboratory); important to get laboratory address for sending strains; two sets of data- easy to mine from laboratory, those not in a registered lab | ||
| + | |||
| + | ===Cross-product development=== | ||
| + | Raymond | ||
| + | * embarking on cross-product generation- ex., male tail, versus hermaphrodite tail - better to have one 'tail' and add modifiers | ||
| + | * wants to move to OWL now; comment is that obo relationships not directly translatable into OWL | ||
| + | * Uberon has elegans anatomy | ||
| + | |||
| + | Gary | ||
| + | * starting to work with Chris and Karen on developing cross-products, still in exploration phase | ||
| + | * not looking at OWL yet | ||
| + | * will get relationships from Raymond | ||
=== WB WBook chapters === | === WB WBook chapters === | ||
Revision as of 19:35, 8 January 2015
Contents
Previous Years
2015 Meetings
January 2015
January 8, 2015
Community annotation
- author participation
- Cecilia: still lots of work to process data, need to process data submitted by authors
- old data kept for history and for comparison
- people mess up institution names - is being changed to a controlled vocabulary
- campus addresses also not standardized - organize/create address fields, e.g., street address, mail-code, etc.,
- add example address
- ~10 author submissions a week
- most curation is extracting people information from papers (~800 week), as automated as possible right now - people and affiliation are extracted from xml, but still needs to be parsed
- how to mine author data from other sources (institution, laboratory); important to get laboratory address for sending strains; two sets of data- easy to mine from laboratory, those not in a registered lab
Cross-product development
Raymond
- embarking on cross-product generation- ex., male tail, versus hermaphrodite tail - better to have one 'tail' and add modifiers
- wants to move to OWL now; comment is that obo relationships not directly translatable into OWL
- Uberon has elegans anatomy
Gary
- starting to work with Chris and Karen on developing cross-products, still in exploration phase
- not looking at OWL yet
- will get relationships from Raymond
WB WBook chapters
Main outline here
- Gene Function and Interaction google docs (Chris, Gary S., Karen, Kimberly) here
- Pathways and Processes (Karen) here
Picture curation
- for topic curation
- want to annotate figures with genes
- want dynamic display with slide show, different highlighted figures, crowdsourcing
- for mutant phenotype
