2012 GOC Meeting Caltech: Difference between revisions
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= [[2012 Caltech GOC Meeting Logistics]] = | = [[2012 Caltech GOC Meeting Logistics]] = | ||
024 Beckman Behavioral Biology Building; [coffee at 09:30] | |||
= Biological relevance - Paul S - Sunday 10:30 = | = Biological relevance - Paul S - Sunday 10:30 = | ||
* GO as a biological reference (critique?) | * GO as a biological reference (critique?) | ||
** Biological utility survey (Rama, Ranjana) | ** Biological utility survey (Rama, Ranjana) | ||
Line 57: | Line 57: | ||
*** Short term: towards protein2go | *** Short term: towards protein2go | ||
*** Longer term: capabilities to support LEGO | *** Longer term: capabilities to support LEGO | ||
* Enrichment (and other) tool improvement plans (Chris) | * Enrichment (and other) tool improvement plans (Chris) | ||
** Standardize interface to tools & allow plug in play eg via [[Galaxy]] | ** Standardize interface to tools & allow plug in play eg via [[Galaxy]] | ||
** Promote tools that provide access to latest GO, work with those that don't. See [[GO Tools Registry]] | ** Promote tools that provide access to latest GO, work with those that don't. See [[GO Tools Registry]] | ||
** Getting enrichment tools to leverage ontology and annotation improvements | ** Getting enrichment tools to leverage ontology and annotation improvements | ||
* PAINT (Paul T) | |||
** PAINT annotation progress | |||
= Annotation Production - Judy Tuesday mid-morning to mid-afternoon = | = Annotation Production - Judy Tuesday mid-morning to mid-afternoon = |
Revision as of 16:50, 5 October 2012
2012 Caltech GOC Meeting Logistics
024 Beckman Behavioral Biology Building; [coffee at 09:30]
Biological relevance - Paul S - Sunday 10:30
- GO as a biological reference (critique?)
- Biological utility survey (Rama, Ranjana)
- Strategy for prioritization of ontology development topics (Paul)
- Emily summation of needed areas aka textbook
- Information content approach
- Objectives for this meeting
- set quarterly objectives process
Web - Cherry - Sunday afternoon
- GO Website and user interfaces
- AmiGO 2 the sequel (Seth)
- QuickGO (Tony)
- GO-Mine (Ben/Kalpana)
- Switch to Drupal (Seth)
- dynamic monitoring of discussions (biostars, Tweets, etc.)
- New logo (Mike will just tell us)
- Need a webmaster?
- GO Help (Judy)
- any new approaches?
- %of questions we can answer with available tools?
- Dissemination
- Publication plans
- Meetings to attend
- New training material
- Licensing issues (Seth)
Biological Representation - Paul T - Monday morning to mid-afternoon
- Management of Ontology Development
- Jira tracking system (Jane)
- Automated ontology checks Jenkins (Chris)
- ontology publishing pipeline
- Term Genie status (Heiko - ~6 slides + demo)
- Incorporation of External ontologies (David and Jane)
- Report on migration of NIF subcellular AO to GO-CC (Jane)
- CHEBI (David)
- BFO 2.0 - (Chris)
- do we comply with BFO and split part_of into 2 relations? Need 'official' signoff of GO's stance
- Extensions to the GO annotation model
- LEGO data model, an 'annoton' (Chris and Paul)
- For prototyping: Protege plug-in for annotation (Heiko)
- Current examples (Kimberly and David)
- col. 16 extensions (Paul, Chris, Jane, Rachael)
- GPAD releases
- relationship to LEGO
- LEGO data model, an 'annoton' (Chris and Paul)
Project infrastructure - Suzi - Monday mid-afternoon to Tuesday mid-morning
- CAT
- Architecture, services (Suzi)
- protein2go introduction (Rachael)
- WormBase experience with protein2go (Kimberly)
- Wormbase CC tool (Kimberly)
- Migration plans (Suzi)
- Short term: towards protein2go
- Longer term: capabilities to support LEGO
- Enrichment (and other) tool improvement plans (Chris)
- Standardize interface to tools & allow plug in play eg via Galaxy
- Promote tools that provide access to latest GO, work with those that don't. See GO Tools Registry
- Getting enrichment tools to leverage ontology and annotation improvements
- PAINT (Paul T)
- PAINT annotation progress
Annotation Production - Judy Tuesday mid-morning to mid-afternoon
- Annotation Production Progress/Tracking (Paul S)
- volume of annotations
- backlog of papers selected
- New reporting page
- Observations/Comments
- Term requests (Judy/Jane)
- Current rate of additions & rate of clearance
- Standard processing of uploaded annotations
- Automated annotation QC (Chris/Heiko ~5 slides + demo)
- Annotation "Quality" measurement (Mike)
- Filtering of taxid that are not supported (Mike)
- Redundant/non-redundant annotations (Rama will summarize what was discussed during AnnotationCalls)
- Provenance of evidence (Rama)
- Current ontology development and annotation topics on the table (one slide each, Judy to present)
- cardio conduction (Ruth)
- apoptosis (Paola)
- cell cycle (Val or Judy)
- tRNA Modification (Harold)
- review of approach, staging (Judy)
- Submissions and outreach to outside groups
- Web page with instructions (Rama)
- Pulling in external annotations
- Future work - who has been in contact? any active outreach?