Architectural Plan of S. pombe
Johanna Hoog and Claude Anthony

Did You Know ... ?

PomBase has several types of documentation and help to assist you in finding data, using tools and features, and more. The main Documentation page provides a convenient overview of the documentation available for PomBase gene pages, searches, and other features, as well as resources available as part of the Ensembl Genomes project. "Help" links throughout the gene pages link to relevant portions of the documentation. We also maintain a list of Frequently Asked Questions (FAQ).

If you can't find what you need in the documentation or FAQ, you can ask about anything via the PomBase Helpdesk: go to the web form or email helpdesk@pombase.org. We also welcome suggestions that will improve or extend PomBase documentation.

About PomBase

PomBase is a comprehensive database for the fission yeast Schizosaccharomyces pombe, providing structural and functional annotation, literature curation and access to large-scale data sets

Service Announcement

The genome browser will be unavailable for approximately 30 minutes at 10:00 GMT on Tuesday 3rd February 2015, to allow migration to new hardware.

We apologise for any inconvenience caused.

News

Tuesday, 27th Jan, 2015

We have updated the data available on the PomBase web site to include manual curation through January 12, 2015, including 240 community-curated publications. The gene page Phenotype section now features a compact default display. A downloadable "viability summary" data file is now available. The PomBase BLAST server has incorporated interface changes made Ensembl-wide.

Thursday, 11th Dec, 2014

PomBase has implemented network visualisations for fission yeast in esyN, using data curated by BioGRID and PomBase. esyN is a web-based tool for building, sharing, and viewing network data developed by Dan Bean and Giorgio Favrin in the Cambridge Systems Biology Centre, University of Cambridge, UK.

On gene pages, we have links to gene-specific interaction networks in esyN in the table headers of the Interactions sections:

  • The Genetic Interactions section links to all interactions centred on the gene and curated in BioGRID
  • The Physical interactions section has links to two datasets:
    • All physical interactions curated in BioGRID for the gene
    • ...
Thursday, 11th Dec, 2014

To make the Gene Ontology (GO) annotations easier to read on PomBase gene pages, we have introduced a new, streamlined display that presents just the essentials. The summary shows the term name (hyperlinked to the ontology term page), the count of genes annotated to the term, and any annotation extensions. All of the previously visible annotation details are still available -- simply click the "Summary" button to switch to the "Full" view. Or click the "+" and "-" icons to expand or collapse the annotation to a single term.
 
In addition, the top of the Biological Process table now lists any GO slim terms applicable to the gene.