Difference between revisions of "Annotation"

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==Purpose==
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==Group Leaders==
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Emily Dimmer (GOA@UniProt) and Rama Balakrishnan (SGD) with help from Pascale (dictyBase/Ref.genome project).
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==GO Annotation Camp==
[http://gocwiki.geneontology.org/index.php/2010_GO_camp_Meeting_Logistics 2010 GO Annotation Camp in Geneva, Switzerland, June 16-18 2010 ]
 
[[Guidelines from Annotation Camp]]
 
==Activities==
 
*[http://wiki.geneontology.org/index.php/Annotation_Advocacy_Roadmap_2010 Roadmap 2010]
*[http://wiki.geneontology.org/index.php/Annotation_Advocacy_Roadmap_2011 Roadmap 2011]
*[[Media:AnnotationRoadMap.pdf | RoadMap]] (PDF file - provides project goals with time line)
*Educate GOC curators about best annotation practice;
*Enforce annotation rules/policies within GOC
*Maintain the annotation/evidence code documentation
**[[Mock-ups of new GOC Annotation pages]]
*Train/assist new groups with annotations: see [[How_External_Communities_can_contribute_annotations_to_the_GO_Consortium]]
*Educate and keep all the annotating groups up-to-date with changes in GAF format
**[[Column 16: Cell Type]]
*Keep all curators up-to-date with ontology development and how it affects annotations
 
*[[Chain of Evidence]]- Proposal to represent chain/summation of evidence in an annotation.
*[[Evidence Code Ontology (ECO)]] - Proposal to represent evidence in an ontology
*[[Proposal for cron tabs]] - Proposal for setting up cron tabs for generating PAINT and MF-BP inferences
*[[Examples for phylogeny based evidence codes]]
*[[Ideas for GOC community curation tool]]
*[[Protein Complex ids as GO annotation objects]]
*[[LEGO-style annotation ideas]]
* [[Proposed Developments to the GAF annotation format]]
*[[InterPro2GO Session October 4th 2011]]
 
==How To?==
How to load the ontology file into Obo-Edit tool directly from the web without downloading the file from cvs etc?<br>
OBO-Edit can load files from the disk OR from a URL.<br>
Choose the "File -> Load..." menu option<br>
Choose the OBO File Adapter<br>
Type http://www.geneontology.org/ontology/gene_ontology.obo into the filename box<br>
(From:http://www.geneontology.org/newsletter/archive/200705.shtml#tip)
 
To see the has_part relationships, use this URL for the extended GO version:<br>
 
http://www.geneontology.org/ontology/obo_format_1_2/gene_ontology_ext.obo
 
==Annotation Conference calls==
 
*[[Topics for annotation call | Add your topics/issues]]
 
*[[Agenda for November 8th |Annotation Jamboree, Nov 8, 2010]]
*[[Agenda for Dec 13th | Annotation Conf. Call, Dec 13, 2010]]
*[[Annotation Conf. Call, Jan 10, 2011]]
*[[Annotation Conf. Call, Feb 22, 2011]]
*[[Annotation Conf. Call, Mar 22, 2011]]
*[[Annotation Conf. Call, June 28, 2011]]
*[[Annotation Conf. Call, July 12, 2011]]
* Annotation Conf. Call, July 26, 2011 [[Transcription jamboree]]
*[[Annotation Conf. Call, August 9, 2011]]
*[[Annotation Conf. Call, August 23, 2011]]
*[[Annotation Conf. Call, September 13, 2011]]
*[[Annotation Conf. Call, September 27, 2011]]
*[[Annotation Conf. Call, October 4, 2011]]
*[[Annotation Conf. Call, October 18, 2011]]
*[[Annotation Conf. Call, November 2, 2011]]
*[[Annotation Conf. Call, November 16, 2011]]
*[[Annotation Conf. Call, November 30, 2011]]
*[[Annotation Conf. Call, December 14, 2011]]
 
==Monthly Reports==
*[[September2011_Annotation_Advocacy_Report|September 2011]]
*[[August2011_Annotation_Advocacy_Report|August 2011]]
*[[July2011_Annotation_Advocacy_Report|July 2011]]
*[[June2011_Annotation_Advocacy_Report|June 2011]]
*[[May2011_Annotation_Advocacy_Report|May 2011]]
*[[April2011_Annotation_Advocacy_Report|April 2011]]
*[[March2011_Annotation_Advocacy_Report|March 2011]]
*[[February2011_Annotation_Advocacy_Report|February 2011]]
*[[January2011_Annotation_Advocacy_Report|January 2011]]
*[[December2010_Annotation_Advocacy_Report|December 2010]]
*[[November2010_Annotation_Advocacy_Report|November 2010]]
*[[October2010_Annotation_Advocacy_Report|October 2010]]
*[[September2010_Annotation_Advocacy_Report|September 2010]]
*[[August2010_Annotation_Advocacy_Report|August 2010]]
*[[July2010_Annotation_Advocacy_Report|July 2010]]
*[[Jun2010_Annotation_Advocacy_Report|June 2010]]
 
==Meeting calendar==
[[Annotation_topics for next meeting]]
 
[[Annotation_31Jan10]]
 
[[Annotation_21Dec10]]
 
[[Annotation_19Oct10]]
 
[[Annotation_21Sept10]]
 
[[Annotation_17Aug10]]
 
[[Annotation_04Aug10]]
 
[[Annotation_19July10]]
 
[[Annotation_22June10]]
 
[[Annotation_08June10]]
 
[[Annotation_01June10]]
 
[[Annotation_17May10]]
 
[[Annotation_29Apr10]]
 
[[Annotation_15Apr10]]
 
[[Annotation_08Apr10]]
 
[[Annotation_22Mar10]]
 
[[Annotation_15Mar10]]
 
==Metrics of success==
 
 
* [[Annotations removed as a result of Annotation QCs]]
 
* [http://go.berkeleybop.org/news4go/node/80| Moved to GAF2.0 format on the 1st June 2010]
 
==Process==
 
[http://gocwiki.geneontology.org/index.php/Annotation_Issues_and_Management Annotation Issues]
 
==Issues for the Annotation Group==
# Division of annotation and GO content development effort and feedback between participating databases (UniProtKB and MODs)
 
[[Annotations to Catalytic activity with IPI]]
[[Annotation Quality Control Checks]]
 
[[Action items from March 2010 GOC meeting]]

Revision as of 23:08, 25 September 2011

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