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. 2008 Jan;36(Database issue):D449–D454. doi: 10.1093/nar/gkm908

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© 2007 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 1. — Stepwise guide to search and browse the PO and annotations. (a) The view of Plant Ontology project website (http://www.plantontology.org). Display features a navigation menu, ‘what's new’ section and the project description. The ‘Search/Browse Plant Ontologies’ links to the front page of PO ontology browser. (b) The simple search page for Ontology database with several options. All ontology browser pages have the same header, which allows users to search for PO terms or annotations, request PO term if it is not available in the database and provides direct access to a ‘Help’ page that describes details of how to use the ontology browser. The ‘Advanced Search’ link allows users to search for more than one term or annotations in different fields of the database and the search results can be filtered by ontology type, the evidence code, source species and data source. The ‘Browse’ link opens up a browsable ontology tree. (c) Browsable tree view of ontology. It can be browsed by expanding (click on + sign) or contracting (click on − sign) on the left side of the term name. The circular icons with characters I/P/D to the left of the term represent the relationship types, IS_A, PART_OF and DEVELOPS_FROM, respectively. More options on pie chart of annotations, links to download in XML or GO flat file formats, Permalink for book marking and summary of the number of annotations next to term names is provided. To view the annotations e.g. associated with PO:0001083: inflorescence development stages, click the number ‘8’ in curved brackets. (d) A list of annotations associated to a term (e.g. PO:0001083). The annotation table provides information on object type (gene, QTL, stock), name of the object, synonyms, link to the same entry in source database, evidence and evidence code used for associating the ontology term to the object.