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Resource:GONUTS

Name: Resource:GONUTS
Description: This Gene Ontology Normal Usage Tracking System (GONUTS) is a wiki where users of the Gene Ontology can contribute and view notes about how specific GO terms are used. GONUTS can also be used as a GO term browser, or to search for GO annotations of specific genes from included organisms. The rationale for this wiki is based on helping new users of the gene ontology understand and use it. The GONUTS wiki is not an official product of the the Gene Ontology consortium. The GO consortium has a public wiki at their website, http://wiki.geneontology.org/index.php/Main_Page.

Maintaining the ontology involves many decisions to carefully choose terms and relationships. These decisions are currently made at GO meetings and via online discussion using the GO mailing lists and the Sourceforge curator request tracker. However, it is difficult for someone starting to use GO to understand these decisions. Some insight can be obtained by mining the tracker, the listservs and the minutes of GO meetings, but this is difficult, as these discussions are often dispersed and sometimes don't contain the GO accessions in the relevant messages.

Wikis provide a way to create collaboratively written documentation for each GO term to explain how it should be used, how to satisfy the true path requirement, and whether an annotation should be placed at a different level. In addition, the wiki pages provide a discussion space, where users can post questions and discuss possible changes to the ontology.

GONUTS is currently set up so anyone can view or search, but only registered users can edit or add pages. Currently registered users can create new users, and we are working to add at least one registered user for each participating database (So far we have registered users at EcoliHub, EcoCyc, GOA, BeeBase, SGD, dictyBase, FlyBase, WormBase, TAIR, Rat Genome Database, ZFIN, MGI, UCL and AgBase...

Platform: Online tool
Other Name(s): Gene Ontology Normal Usage Tracking System, GONUTS wiki
Parent Organization: Resource:EcoliHub
Supporting Agency: NIGMS
Related to: Resource:GO, Resource:Gene Ontology Tools
Resource Type(s): Wiki, Database
Keywords: ontology or annotation browser, ontology or annotation search engine, ontology or annotation editor
Grant: 1U24 GM077905-01, 511-1960-01, U24 GM088849
Abbreviation: GONUTS
Resource: Resource
URL: http://gowiki.tamu.edu/wiki/index.php/Main_Page
PMID: PMID 22110029
Publication link: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245169/
Availability: Free for academic use
Id: nlx_30164
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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Notes

This page uses this default form:Resource

Contributors

Aarnaud, Ccdbuser



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Facts about Resource:GONUTSRDF feed
AbbrevGONUTS  +
AvailabilityFree for academic use  +
CommentGO data updates: no fixed update schedule
CurationStatuscurated  +
DefiningCitationhttp://gowiki.tamu.edu/wiki/index.php/Main_Page  +
DefinitionThis Gene Ontology Normal Usage Tracking S This Gene Ontology Normal Usage Tracking System (GONUTS) is a wiki where users of the Gene Ontology can contribute and view notes about how specific GO terms are used. GONUTS can also be used as a GO term browser, or to search for GO annotations of specific genes from included organisms. The rationale for this wiki is based on helping new users of the gene ontology understand and use it. The GONUTS wiki is not an official product of the the Gene Ontology consortium. The GO consortium has a public wiki at their website, http://wiki.geneontology.org/index.php/Main_Page.

Maintaining the ontology involves many decisions to carefully choose terms and relationships. These decisions are currently made at GO meetings and via online discussion using the GO mailing lists and the Sourceforge curator request tracker. However, it is difficult for someone starting to use GO to understand these decisions. Some insight can be obtained by mining the tracker, the listservs and the minutes of GO meetings, but this is difficult, as these discussions are often dispersed and sometimes don't contain the GO accessions in the relevant messages.

Wikis provide a way to create collaboratively written documentation for each GO term to explain how it should be used, how to satisfy the true path requirement, and whether an annotation should be placed at a different level. In addition, the wiki pages provide a discussion space, where users can post questions and discuss possible changes to the ontology.

GONUTS is currently set up so anyone can view or search, but only registered users can edit or add pages. Currently registered users can create new users, and we are working to add at least one registered user for each participating database (So far we have registered users at EcoliHub, EcoCyc, GOA, BeeBase, SGD, dictyBase, FlyBase, WormBase, TAIR, Rat Genome Database, ZFIN, MGI, UCL and AgBase...

Platform: Online tool , UCL and AgBase...

Platform: Online tool
ExampleImageGONUTS.PNG  +
GrantCategory:1U24 GM077905-01   +, Category:511-1960-01   +, and Category:U24 GM088849   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleWiki  +, and Database  +
Idnlx_30164  +
Is part ofResource:EcoliHub  +
KeywordsOntology or annotation browser  +, Ontology or annotation search engine  +, and Ontology or annotation editor  +
LabelResource:GONUTS  +
ModifiedDate12 September 2012  +
PMID22110029  +
Page has default formThis property is a special property in this wiki.Resource  +
PublicationLinkhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245169/  +
RelatedToResource:GO  +, and Resource:Gene Ontology Tools  +
SuperCategoryResource  +
Supporting AgencyNational Institute of General Medical Sciences  +
SynonymGene Ontology Normal Usage Tracking System  +, and GONUTS wiki  +