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Accessing the data in UniProt-GOA
Browsing and searching
The UniProt-GOAwebsite features a QuickGO search bar at the top of the page, which allows you to search for GO terms or for UniProtKB proteins and their associated GO annotations. QuickGO is a web-based browser developed by the UniProt-GOA project (Figure 2).
QuickGO also allows you to view annotations using GO Slim, a customised subset of GO, which can provide the user with an overview of the biological attributes for a list of proteins of interest. This facility is accessible from the home page of QuickGO (Figure 2).
QuickGO has an array of filtering options, accessible from the annotation page, which allow you to search for custom sets of annotations. For example, you can filter by taxon, GO term, GO evidence code, or you can search for annotations to a list of protein accessions. Various statistics are calculated for the annotation sets, which allow you to instantly view, for example, how many proteins have been associated with a particular GO term, or how many annotations were derived from experimental evidence.
Downloading annotation sets from QuickGO
Sets of annotations obtained using QuickGO can be downloaded to your computer in a variety of formats, including: gene association files, FASTA and protein lists. There is a 'Download' button on the annotation page.
Figure 2. The QuickGO web browser. For searching Gene Ontology terms and proteins from UniProtKB.
QuickGO term information
When viewing an individual GO term, all of the information associated with that particular term is displayed. This includes the definition, synonyms, child terms, etc. (Figure 3).
Figure 3. The QuickGO term information page displays the biological information related to individual GO terms, including the definitions and synonyms. This example is for GO term 'GO:0045787' ('positive regulation of cell cycle').
QuickGO ancestor chart
You can also view the GO term in the context of its related terms by using the ancestor chart view (Figure 4).
Figure 4. The QuickGO ancestor chart displays the GO term in the context of its related terms. In this example, 'positive regulation of cell cycle' is related to 'regulation of cell cycle', 'positive regulation of cellular processes', and so on.
Additionally, you can search for GOannotations for a chosen individual or set of proteins (Figure 5).
Figure 5. QuickGO annotation page for a single protein, angiomotin (Q4VCS5). Lists the biological information associated with this protein, based on evidence from the scientific literature.