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

Sequence feature curation

Daniela, Gary, Xiaodong, Mary Ann are validating papers as positive/negative in curation status form. As soon as ready Mary Ann/Gary will start curating

Rose alleles

150,000 new alleles, Mary Ann working on it
phenotypes were only reported for a small fraction

CGC strains

Mary Ann received latest update, CGC very busy with new gene engineering technique

WB WBook chapters

Main outline here

Gene Function and Interaction google docs (Chris, Gary S., Karen, Kimberly)

here

Pathways and Processes (Karen) here
Expression (Daniela)

Micropublication

Hobert- micropublication for expression = small facts, data will never be published (Daniela)
Community annotation not linked to a publication
a couple models
- WB captures submissions blind
- WB reviews
need to establish microattributions to increase the value of submissions
involve semi-peer review through automated feed back to scientists who've worked on the gene, cell, entity, etc.
need to set up a pilot, to see how popular

Picture curation

for topic curation
- want to annotate figures with genes
- want dynamic display with slide show, different highlighted figures,
community voting - crowdsourcing
WB-blessed image represented through wikipathways

Kimberly

Continuing work on the new GO model

Juancarlos

management of automated descriptions with Ranjana
phenotype requests through RNAi and allele phenotype

Automated descriptions

playing with pulling out useful data to add to description automation

WormBase-Caltech Weekly Calls

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