Ontology Development: Difference between revisions
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*Ongoing addition of cross-products - see [[:Category:Cross_Products]] and [[Cross_Product_Guide]] | *Ongoing addition of cross-products - see [[:Category:Cross_Products]] and [[Cross_Product_Guide]] | ||
**[[Cell cross-products]] (Jane, Paola, Alex, Chris) | **[[Cell cross-products]] (Jane, Paola, Alex, Chris) | ||
**[[Adding missing CHEBI xps]] | |||
*[[Signaling |Signaling overhaul]] (Becky, signaling WG) | *[[Signaling |Signaling overhaul]] (Becky, signaling WG) | ||
*[[Virus terms|Virus-related term overhaul]] (Jane Lomax, Brenley McIntosh, Rebecca Foulger & others) | *[[Virus terms|Virus-related term overhaul]] (Jane Lomax, Brenley McIntosh, Rebecca Foulger & others) | ||
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* [[oxidoreductases]] | * [[oxidoreductases]] | ||
== | ==Guides, Training and Documentation== | ||
*[[Content Meeting Documentation|Guidance for organizing content meetings]] | *[[Content Meeting Documentation|Guidance for organizing content meetings]] | ||
*[[:Category:Curator Guides|Curator guides]] | *[[:Category:Curator Guides|Curator guides]] | ||
*[[Ontology Documentation Drafts]] - for working on documentation of ontology content that will become part of the web-based documentation | *[[Ontology Documentation Drafts]] - for working on documentation of ontology content that will become part of the web-based documentation | ||
*[[New Ontology Editor Training]] | |||
==Other Ontology Development Group Activities== | |||
*Ongoing work on Quality control reports; see [[Ontology_Quality_Control]] (David, Jane, Chris, Tanya) | |||
*[[microbial ontology development and annotation]] | *[[microbial ontology development and annotation]] | ||
*[[Cell-type specific GO terms]] | *[[Cell-type specific GO terms]] | ||
*[[Ontology_Development_Reports|Reports]] | *[[Ontology_Development_Reports|Reports]] | ||
*[[Ontology Editing Examples]] | *[[Ontology Editing Examples]] | ||
*[[Protege workshop]] | *[[Protege workshop]] | ||
*[[Template-able Requests Prior To TG]] | *[[Template-able Requests Prior To TG]] | ||
*[[Regulation]] | *[[Regulation]] | ||
*[[Jenkins]] | *[[Jenkins]] | ||
*[[Enzymes and EC mappings]] | *[[Enzymes and EC mappings]] | ||
*[[http://wiki.geneontology.org/index.php/Usage_of_terms_describing_protein_or_chemical_production Production Terms]] | *[[http://wiki.geneontology.org/index.php/Usage_of_terms_describing_protein_or_chemical_production Production Terms]] | ||
*[[http://wiki.geneontology.org/index.php/Virus_ontology_devt_July_2012 Phage Terms]] | *[[http://wiki.geneontology.org/index.php/Virus_ontology_devt_July_2012 Phage Terms]] | ||
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==Useful Links== | ==Useful Links== | ||
*[[Completed ontology content work]] | *[[Completed ontology content work]] | ||
*[[SF Rota for Gene Ontology requests]] | |||
*[[TermGenie1 Gatekeeper Rota]] | |||
Revision as of 10:49, 27 February 2013
This group's purpose is to ensure that the Gene Ontology represents biology in a way that is useful for gene product annotation of reference genomes and other MODs using the GO for annotation. The group serves as the link between biological knowledge that is gained from wet-bench scientists and the representation of that knowledge in the GO. Members of the group are responsible for reporting areas of the GO that need development and for suggesting changes and additions to the GO as needs arise. Members of the group serve as biological experts in domains that are covered by their organism. They are responsible for reviewing changes to be sure that they accurately reflect our current understanding of biology.
Content Development
Projects
High Priority
- Cell Cycle (Val, Pombe experts, GOEds)
- Ongoing addition of cross-products - see Category:Cross_Products and Cross_Product_Guide
- Cell cross-products (Jane, Paola, Alex, Chris)
- Adding missing CHEBI xps
- Signaling overhaul (Becky, signaling WG)
- Virus-related term overhaul (Jane Lomax, Brenley McIntosh, Rebecca Foulger & others)
Medium Priority
- Non-symbiotic multi-organism processes (Jane)
- Neurobiology Project (David, Tanya, Jane, Paola)
Low priority
- Neuro Behaviour Ontology (NBO)-GO alignment (Jane, George Gkoutos, Chris)
- Peripheral nervous system development
- Uberon alignment
Recently completed projects
- Apoptosis (Emily, Becky, Paola, Pablo and community experts) - Feb 2013
- Transcription & transcription factor activity overhaul (Karen, David) - 2012
- Kidney Physiology (David, Yasmin, Doug, Tanya, Becky, Edinburgh GUDMAP group)
- Cardiac conduction (David, Ruth, Doug, Tanya, Becky, Paola, Stan)
- Rework disjoint terms as concluded in discussion on GO list (Jane).
- MENGO collaboration (Jane)
Proposed content work
A list of topics that we propose to address, but for which a timeline has not been set
- Revamp embryonic and post-embryonic terms to be logically defined with cross products to stage ontology.
- Overhaul translation, similar to what's being done for transcription. SF 1891512 is closed, but notes some issues for consideration. (midori 2010-10-04)
- Recombination and DNA repair
- RNA processes
- Bile formation and secretion processes
- protein and peptidyl amino acid modification / protein processing
- Response to drug
- Polyketide synthases
- cell growth/proliferation/division
- oxidoreductases
Guides, Training and Documentation
- Guidance for organizing content meetings
- Curator guides
- Ontology Documentation Drafts - for working on documentation of ontology content that will become part of the web-based documentation
- New Ontology Editor Training
Other Ontology Development Group Activities
- Ongoing work on Quality control reports; see Ontology_Quality_Control (David, Jane, Chris, Tanya)
- microbial ontology development and annotation
- Cell-type specific GO terms
- Reports
- Ontology Editing Examples
- Protege workshop
- Template-able Requests Prior To TG
- Regulation
- Jenkins
- Enzymes and EC mappings
- [Production Terms]
- [Phage Terms]
- Terms that could be obsoleted if information was collected as annotation extension
- Editorial-type sections copied over from the GO website ontology documentation: MF
Meetings
Cambridge Editors' meetings - weekly Tuesday 10-11 AM
Editor's Conference calls-weekly NOW ON THURSDAYS, 8:30-9:15 AM PST
- Jan 10 2013
- Jan 17
- Jan 24
- Jan 31
- Feb 7
- Feb 14
- Feb 21
- Feb 28 No call (cell cycle meeting)
- Mar 7
- Mar 14
- Mar 21
- Mar 28
Useful Links