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Resource:AmiGO

Name: Resource:AmiGO
Description: Official Web-based tools for searching and browsing the Gene Ontology database, which consists of a controlled vocabulary of terms covering biological concepts, and a large number of genes or gene products whose attributes have been annotated using GO terms. It can be accessed online at the main installation or deployed locally.

The Gene Ontology project is a major bioinformatics initiative with the aim of standardizing the representation of gene and gene product attributes across species and databases.

AmiGO can be used to:

  • search for a gene or gene product, or a list of gene or gene products, and view the GO term associations
  • perform a sequence identity BLAST search and view the GO term associations for the genes or proteins returned
  • search for GO terms and view the genes or gene products they are annotated to
  • browse the GO ontology and view terms
  • the slimmer tool can be used to map the granular annotations of the query set of genes to one or more high-level
  • term enrichment tool is used to discover what a set of genes may have in common by examining annotations and finding significant shared GO terms.
  • GOOSE is for advanced users who want to run custom SQL queries against the GO database.
    [1]
Other Name(s): Gene Ontology - AmiGO, Gene Ontology Database, GO Database, The Gene Ontology Consortium: AmiGO, Gene Ontology Consortium: AmiGO, Gene Ontology: AmiGO
Abbreviation: AmiGO
Parent Organization: Resource:GO
Supporting Agency: NHGRI
Grant: P41 5P41HG002273-08
Resource Type(s): Software application, Database, Data analysis service
Resource: Resource
URL: http://amigo.geneontology.org/
Id: nif-0000-20935
PMID: PMID 19033274
Related to: Resource:NIF Data Federation, Resource:Gene Ontology Tools, Resource:Berkeley Bioinformatics Open-Source Projects, Resource:OMICtools
Availability: Open unspecified license, Free for academic use, Acknowledgement requested
Keywords: gene, gene ontology, gene product, annotation, bioinformatics, biological, blast, concept, protein, search engine, visualization, Ontology, Browser, ontology or annotation browser, ontology or annotation search engine, ontology or annotation visualization, slimmer-type tool, term enrichment, other analysis, Windows, Mac OS X, Linux, Unix
Link to OWL / RDF: Download this content as OWL/RDF

Categories related to Resource:AmiGO

Resource:ASAP, Resource:ASPGD, Resource:Candida Genome Database, Resource:DictyBase, Resource:ECO, Resource:EcoCyc, Resource:FLYBASE, Resource:GO-Module, Resource:GeneDB Lmajor, Resource:GeneDB Pfalciparum, Resource:GeneDB Tbrucei, Resource:Gramene, Resource:JCVI CMR, Resource:MGI, Resource:MeGO, Resource:NCBI, Resource:NCBI Protein, Resource:PDB, Resource:PO, Resource:PomBase, Resource:Pseudomonas Genome Database, Resource:RGD, Resource:RamiGO, Resource:Reactome, Resource:SGD, Resource:SGN, Resource:Songbird Brain Transcriptome Database, Resource:TAIR, Resource:UniProtKB, Resource:VMD, Resource:WormBase, Resource:ZFIN, Resource:go-db-perl

Parts of Resource:AmiGO

Curation status: Curated

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References

  1. Carbon S et al. (2009) AmiGO: online access to ontology and annotation data. Bioinformatics 25: 288-9 PubMed

Notes

This page uses this default form:Resource

Xref: OMICS_02266

Contributors

Aarnaud, Ccdbuser



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Facts about Resource:AmiGORDF feed
AbbrevAmiGO  +
AvailabilityOpen unspecified license  +, Free for academic use  +, and Acknowledgement requested  +
CommentGO data updates: Daily
CurationStatuscurated  +
DefiningCitationhttp://amigo.geneontology.org/  +
DefinitionOfficial Web-based tools for searching and Official Web-based tools for searching and browsing the Gene Ontology database, which consists of a controlled vocabulary of terms covering biological concepts, and a large number of genes or gene products whose attributes have been annotated using GO terms. It can be accessed online at the main installation or deployed locally.

The Gene Ontology project is a major bioinformatics initiative with the aim of standardizing the representation of gene and gene product attributes across species and databases.

AmiGO can be used to:

  • search for a gene or gene product, or a list of gene or gene products, and view the GO term associations
  • perform a sequence identity BLAST search and view the GO term associations for the genes or proteins returned
  • search for GO terms and view the genes or gene products they are annotated to
  • browse the GO ontology and view terms
  • the slimmer tool can be used to map the granular annotations of the query set of genes to one or more high-level
  • term enrichment tool is used to discover what a set of genes may have in common by examining annotations and finding significant shared GO terms.
  • GOOSE is for advanced users who want to run custom SQL queries against the GO database.
    QL queries against the GO database.
ExampleImageAmiGO.PNG  +
GrantCategory:P41 5P41HG002273-08   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleSoftware application  +, Database  +, and Data analysis service  +
Idnif-0000-20935  +
Is part ofResource:GO  +
KeywordsGene  +, Gene ontology  +, Gene product  +, Annotation  +, Bioinformatics  +, Biological  +, Blast  +, Concept  +, Protein  +, Search engine  +, Visualization  +, Ontology  +, Browser  +, Ontology or annotation browser  +, Ontology or annotation search engine  +, Ontology or annotation visualization  +, Slimmer-type tool  +, Term enrichment  +, Other analysis  +, Windows  +, Mac OS X  +, Linux  +, and Unix  +
LabelResource:AmiGO  +
ModifiedDate25 July 2014  +
PMID19033274  +
Page has default formThis property is a special property in this wiki.Resource  +
RelatedToResource:NIF Data Federation  +, Resource:Gene Ontology Tools  +, Resource:Berkeley Bioinformatics Open-Source Projects  +, and Resource:OMICtools  +
SuperCategoryResource  +
Supporting AgencyNHGRI  +
SynonymGene Ontology - AmiGO  +, Gene Ontology Database  +, GO Database  +, The Gene Ontology Consortium: AmiGO  +, Gene Ontology Consortium: AmiGO  +, and Gene Ontology: AmiGO  +