- Genome Status
Fission Yeast Phenotype Ontology
PomBase curators develop and use the Fission Yeast Phenotype Ontology (FYPO) to annotate phenotypes of mutant alleles and of over- or under-expressing wild type genes.
The contents and structure of FYPO are described on the FYPO page of the PomBase wiki and in the publication:
Harris MA, Lock A, Bähler J, Oliver SG, Wood V. FYPO: The Fission Yeast Phenotype Ontology. Bioinformatics. 2013 July 1;29(13): 1671–1678.
PubMed abstract (PMID:23658422) or Full text (HTML) at Bioinformatics
Browsing FYPO terms
- BioPortal FYPO summary page
- BioPortal FYPO terms (the term display supports tree-viewer browsing, text searches, and a graphical display)
- OLS FYPO browser
We hope to deploy a browser at PomBase in the not-too-distant future that will include annotations as well as terms.
Finding FYPO terms and annotations in PomBase
FYPO terms are displayed on PomBase gene pages, along with supporting evidence and allele and expression details, as described in the PomBase gene page documentation.
The PomBase advanced search can use either term names or IDs to search FYPO, and returns a list of genes that have alleles annotated to the specified term or any of its descendants. For example, see the FAQ on finding essential genes.
Curating phenotypes with FYPO
Submitting Bulk Data