PomBase is a model organism database established to provide access to molecular data and biological information for the fission yeast Schizosaccharomyces pombe. It encompasses annotation of genomic sequence and features, comprehensive manual literature curation and genome-wide data sets.

Prefix

pombase

Alternative Prefixes

PomBase

Keywords

life science

License

CC-BY-4.0

Links

Homepage

Contact

Valerie Wood   0000-0001-6330-7526   ValWood

Pattern for Local Unique Identifiers

Local identifiers in PomBase should match this regular expression:
^S\w+(\.)?\w+(\.)?$

Example Local Unique Identifier

SPCC13B11.01   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from PomBase should match this regular expression:
^pombase:S\w+(\.)?\w+(\.)?$

Example CURIE

pombase:SPCC13B11.01

Publications

• 2019 PomBase 2018: user-driven reimplementation of the fission yeast database provides rapid and intuitive access to diverse, interconnected information
• 2016 Model organism databases: essential resources that need the support of both funders and users
• 2014 PomBase 2015: updates to the fission yeast database
• 2014 A method for increasing expressivity of Gene Ontology annotations using a compositional approach
• 2014 Canto: an online tool for community literature curation
• 2013 FYPO: the fission yeast phenotype ontology
• 2012 Gene Ontology annotations and resources
• 2011 The Gene Ontology: enhancements for 2011
• 2011 PomBase: a comprehensive online resource for fission yeast

A summary of the relations in the Bioregistry schema can be found here.

In Collection

Global Biodata Coalition - Global Core Biodata Resources

The metaregistry provides mappings between the Bioregistry and other registries. There are 12 mappings to external registries for this resource with 6 unique external prefixes.

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier SPCC13B11.01 is used to demonstrate the providers available for PomBase. A guide for curating additional providers can be found here.

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.