Gene Ontology AmiGO 2 Browser

AmiGO

cl

go/extensions/cl_import.owl

go/extensions/go-bridge-to-nifstd.owl

GO bridge to NIFSTD

id nifstd

id go

Bridging axioms between nifstd and go

id title http://www.ncbi.nlm.nih.gov/pubmed/24093723 The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments.

BridgeOntology

ncbitaxon

go/extensions/ncbitaxon_import.owl

ro

go/extensions/ro_import.owl

uberon

go/extensions/uberon_import.owl

go.owl

GO (OWL edition)

The main ontology in OWL. This is self contained and does not have connections to other OBO ontologies

go.obo

GO (OBO Format edition)

Equivalent to go.owl, in obo format

go.json

GO (JSON edition)

Equivalent to go.owl, in obograph json format

go/extensions/go-plus.owl

GO-Plus

The main ontology plus axioms connecting to select external ontologies, with subsets of those ontologies

go/go-base.owl

GO Base Module

The main ontology plus axioms connecting to select external ontologies, excluding the external ontologies themselves

go/extensions/go-plus.json

GO-Plus

As go-plus.owl, in obographs json format

go/go-basic.obo

GO-Basic, Filtered, for use with legacy tools

Basic version of the GO, filtered such that the graph is guaranteed to be acyclic and annotations can be propagated up the graph. The relations included are is a, part of, regulates, negatively regulates and positively regulates. This version excludes relationships that cross the 3 GO hierarchies.

go/go-basic.json

GO-Basic, Filtered, for use with legacy tools (JSON)

As go-basic.obo, in json format

go/extensions/go-taxon-groupings.owl

GO Taxon Groupings

Classes added to ncbitaxon for groupings such as prokaryotes

go/snapshot/go.owl

GO (OWL edition), daily snapshot release

Equivalent to go.owl, but released daily. Note the snapshot release is not archived.

go/snapshot/go.obo

GO (OBO Format edition), daily snapshot release

Equivalent to go.owl, but released daily. Note the snapshot release is not archived.

Gene ontology: tool for the unification of biology. The Gene Ontology Consortium

The Gene Ontology resource: enriching a GOld mine

The GO ontology is used by the GO consortium for functional annotation of genes

description url annotations to transmembrane transport http://amigo.geneontology.org/amigo/term/GO:0055085

annotation

Uniprot uses GO to show the function of proteins

description url functional annotations of human Sonic hedgehog protein https://www.uniprot.org/uniprot/Q15465#function

annotation

Reactome annotates activities, pathways, and cellular localization using GO

description url protein tyrosine kinase activity of an EGFR complex https://reactome.org/content/detail/R-HSA-177934

annotation

The Alliance of Genome Resources uses GO for model organism gene function annotation

description url Functional summary of C elegans nsy-1 gene https://www.alliancegenome.org/gene/WB:WBGene00003822#function---go-annotations

description url Gene Ontology Causal Activity Models for C elegans nsy-1 gene https://www.alliancegenome.org/gene/WB:WBGene00003822#pathways

annotation

Rhea uses GO to describe individual biochemical reactions

description url Glutamine scyllo-inositol transaminase reaction and associated GO term https://www.rhea-db.org/rhea/22920

mapping