QuickGO Web Services

QuickGO can supply GO term information and GO annotation data via REST web services. The details of each service can be found below; a WADL description of the services can be found here.

Term information

Format	Description
mini	Mini HTML, suitable for dynamically embedding in popup boxes
obo	OBO format snippet
oboxml	OBO XML format snippet

Notes

• Example clients are available in: Java

Annotation

Notes

• Any number of fields can be specified; they will be AND'ed together.
• Any number of values can be specified for each field; they will be OR'ed together.
• Values should be URI encoded.
• The file will be truncated if more than the specified number of annotations are found. The file is roughly 170 bytes/annotation (not gzipped).
• The file will be gzipped if the gz parameter is supplied.
• Example clients are available in: Java | bash | Perl

Description of Fields and Values

Field name	Value	Examples
format	Download file format	gaf, gene2go, proteinList, fasta, tsv
limit	Download limit (number of lines)
gz	gzips the downloaded file
goid	GO identifiers either directly or indirectly (descendent GO identifiers) applied in annotations	GO:0002080
aspect	Use this to limit the annotations returned to a specific ontology or ontologies (Molecular Function, Biological Process or Cellular Component)	F, P, C
relType	By default, QuickGO will display annotations to GO terms that are related to that specified in the goid parameter by is_a, part_of and occurs_in relations; this parameter allows you to override that behaviour.	IPO= See here for the list of available relations.
evidence	Annotation evidence code (Ev) category	IDA, IC, ISS, IEA
source	Annotation provider	UniProtKB, HGNC
ref	PubMed or GO reference supporting annotation. Can refer to a specific reference identifier or category (for category level, use * after ref type)	PUBMED:*, GO_REF:0000002, 16262699
with	Additional supporting information supplied in IEA, ISS, IPI, IC evidenced annotations; see: GO documentation. Can refer to a specific identifier or category (for category level, use * after with type)	EC:2.5.1.30, IPR000092, HAMAP:*
tax	NCBI taxonomic identifer of annotated protein	9606
protein	Specifies one or more sequence identifiers or accessions from available database(s) (see DB filter column)	Mm.363225, P99999
qualifier	Tags that modify the interpretation of an annotation	NOT, colocalizes_with, contributes_to
db	Protein database (identifier type)	UniProtKB, UniGene, Ensembl
q	Advanced query. Used to customize GO annotation sets using Boolean operators	See Advanced Query section below

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