Difference between revisions of "Main Page"
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* [http://code.google.com/p/obo-relations/ OBO relation ontology] | * [http://code.google.com/p/obo-relations/ OBO relation ontology] | ||
* [http://wiki.geneontology.org/index.php/Reasoner_Overview Reasoner Overview] | * [http://wiki.geneontology.org/index.php/Reasoner_Overview Reasoner Overview] | ||
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'''Principles, Rationales and Key Organizing Rules of the PO''' | '''Principles, Rationales and Key Organizing Rules of the PO''' | ||
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* Protocols page for Plant Ontology Releases: [[PO Release SOP Page]] | * Protocols page for Plant Ontology Releases: [[PO Release SOP Page]] | ||
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''' Ontology accessions ''' | ''' Ontology accessions ''' | ||
* [[Accession_IDS_Guide|Guide to unique accessions/ids associated to each PO term]] | * [[Accession_IDS_Guide|Guide to unique accessions/ids associated to each PO term]] | ||
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''' DBXrefs ''' | ''' DBXrefs ''' | ||
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* See also [https://docs.google.com/spreadsheet/ccc?key=0AhrY0qRdO4budHRqaklJcmJxRjlaVnV6UGlyd0xWbHc&hl=en_US Google docs spread sheet] with specific suggestions of what terms and relations to put in column 16. | * See also [https://docs.google.com/spreadsheet/ccc?key=0AhrY0qRdO4budHRqaklJcmJxRjlaVnV6UGlyd0xWbHc&hl=en_US Google docs spread sheet] with specific suggestions of what terms and relations to put in column 16. | ||
*Adding "[[Associated to" links]] to GO (final table column in the association view) | *Adding "[[Associated to" links]] to GO (final table column in the association view) | ||
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| + | '''Requesting new ontology terms, or changes to existing terms''' | ||
| + | *Link to [http://sourceforge.net/tracker/?atid=835555&group_id=76834&func=browse Source Forge tracker] | ||
| + | *Wiki page with instructions on [[How to use the Source Forge tracker]]. | ||
== Other == | == Other == | ||
Revision as of 10:22, 26 April 2012
Welcome to the Plant Ontology Wiki
Plant Ontology Consortium Resources
- Plant Ontology Home
- Search or browse the Plant Ontology
- Release notes the most recent information on the database and website changes.
- Downloads
About the Plant Ontology project
- Overview of the PO project
- POC charter Describes the Consortium's responsibilities and how can you participate in its activities.
- Citing POC How to cite POC in your article
- File:PO brochure final (LC 7-21-11).pdf
PO Releases and Database Updates
Visit the pages below for specific details on each release
Next Scheduled:
Tentatively scheduled for: July 2012 Release
POC Meetings
POC weekly meetings
Minutes of the Plant Ontology Consortium meetings
POC workshops and other meetings
POC_Meeting and Workshop June 29th and 30th, 2010 Corvallis, OR
POC Meeting and Workshop Nov 4th to 6th, 2010; NYBG, Bronx, NY
POC Meeting at NYBG; Sept 10th-11th, 2011
Wood_anatomy_ontology_meeting,_2012_at_NYBG,_agenda
Crop Ontology Workshop at OSU, 2012
POC Collaborators and Affiliated Ontologies
Angiosperm Phylogeny Web Glossary
Minimal Anatomical Terminology
NASC Nottingham Arabidopsis Stock Centre
Ontology for Biomedical Investigations
Solanaceae Genome network (SGN)
* New *
Potential new collaborators:
MASISH- Maize Seed In Situ Hybridization database
International Society of Root Research
Outreach
- Plant Ontology Tutorials
- Introduction to the project (slide show)
Publications and Other Resources
- Related Publications References and citations of interest on ontology, published by the PO consortium and collaborators.
- Plant Ontology Citations Publications from outside the consortium that discuss the PO or use it in their analyses.
If you are aware of a publication that is not on this list, please send us the citation and we will add it.
- Ontology Resources Links to other projects working on ontologies
Plant Ontology Development Guidelines
Developers style guide
Descriptions of relations in the PO
Principles, Rationales and Key Organizing Rules of the PO
The first three pages listed below are not up to date.
- Plant Structure Ontology Rationale for high nodes in the ontology, examples and explanation of three "patterns" of the ontology structure.
- Growth Stages Ontology and frequently asked questions
- Developmental Stages Ontology
- Protocols page for Plant Ontology Releases: PO Release SOP Page
Ontology accessions
DBXrefs
- Database cross reference abbreviations used in the ontology files and the database
- Database cross reference file on the SVN- current
- Custom references maintained by PO, for items without a standard url abbreviation, can be viewed at PO references
- the Plant Ontology curators page provides a list of ontology curators and editors, with their affiliations.
Formats of the Ontology Files
- OBO format: Plant Ontology follows the Gene Ontology's: OBO Flat File Format Specification, version 1.2
- OWL Format:
Preparation and Display of Annotation Files
- If your database/project would like to submit annotations to the PO database, please consult the suggested file format: Annotation Association File Format and the GO gaf 2.0 format
- For more information about how to use column 16: PO_Annotation_Extensions_(column_16)#Specific_suggestions_for_column_16
- See also Google docs spread sheet with specific suggestions of what terms and relations to put in column 16.
- Adding "Associated to" links to GO (final table column in the association view)
Requesting new ontology terms, or changes to existing terms
- Link to Source Forge tracker
- Wiki page with instructions on How to use the Source Forge tracker.
Other
Calendar (POC outreach schedule)
