guide

GO Annotation File Formats

This page documents the file formats used to store gene associations (annotations), data capturing the attributes of gene products using terms from the Gene Ontology. For more general information on annotation, please see the GO annotation guide.

GO Annotation File (GAF) Format 1.0

Annotation data is submitted to the GO Consortium in the form of gene association files, or GAFs. The following document lays out the format specification for GAF 1.0; for the newer GAF 2.0 file syntax, please see the GAF 2.0 file format guide.

More general information on annotation can be found in the GO annotation guide.

The Cell

What is in a cell?

Scratch

This is a scratch page for people to try things out on. Please don't erase this message. foo@bar.com

Other Useful Links

  • SourceForge links: Useful links for the SourceForge site, including both general and GO-specific pages.
  • CVS Help: Help page for those who wish to access the anonymous GO CVS repository
  • GO Editor Guides: A set of guides for curators editing the ontologies.

File Format Guide

GO Formats

The GO File Format Guide documents the structure and syntax of the files available on the GO website, to assist users who need to read, write parsers for, or create these files. The following file formats are documented separately:

GO Database

The GO database is a relational database comprised of the GO ontologies as well as the annotations of genes and gene products to terms in the those ontologies. Housing both the ontologies and the annotations in a single database allows powerful queries of the annotations using the ontology. The GO database is the source of all data available through the legacy AmiGO 1.8 browser and search engine.

Annotation

Annotation is the process of assigning GO terms to gene products. The annotation data in the GO database is contributed by members of the GO Consortium, and the Consortium is continuously encouraging new groups to start contributing their annotations. The list of links below offer details on the GO annotation policies and the annotation process, as well as direct users to other pages of interest on GO annotation conventions, the standard operating procedures used by some consortium members, and the GO annotation file format guide.

About

The Gene Ontology Project