Welcome to the PomBase Wiki

This wiki accompanies ​PomBase, a comprehensive resource for researchers working the fission yeast Schizosaccharomyces pombe. PomBase combines structural and functional annotation, literature curation and access to large-scale data sets. Enjoy!

Meetings

• PomBase Planning Meetings - Agendas and Minutes
• PomBase Curator Meeting - Agendas and Action Items
  • Questions to bring up at in-house meeting
• PomBase Technical Meeting - Agendas and Action Items

Useful Links

• Useful Links

Projects

• Reference Genomes Information and Progress
• Community Curation Initiative?

Documentation

• PomBase Curator Documentation
  • Curation Guidelines?
    • GO specific
    • PomBase In-house GO Annotation guidelines (includes fission yeast specific guidelines)
    • When to Pre- or Post-compose GO terms
  • Qualifiers Used
  • describing residues modified or mutated
• Data Handling Protocols
• Fission Yeast Phenotype Ontology
• External GO Data
• Nomenclature, will eventually move under "About" on pombase.org
• Gene Product naming protocol

Work in progress

• Regulation Examples?
• Phenotype Import Export draft format
• Curator Training Papers
  • Complementation Annotations to transfer
• Curation Tool?
• Long-term wishlist for database?
  • Canned queries for PomBase query tool
• Community Alerts
• Database Sanity Checks
• Annotation in Artemis
• These are terms which were not easily located when annotating, search may need tweaking
• List of Pombase components and links to their repositories?
• Gene Expression Brainstorming
• Kim Priorities?
• List of approximate results for a set of test queries
• Pfam submissions in progress
• ​Legacy Qualifiers
• Test session cleanup / deletion?
• BioGRID bait/hit notation mapping
• Pre- vs. post-composing phenotype terms with conditions

Inventories

• list of conditions
• Known Drug Targets

• PRO IDs for modified forms of S. pombe proteins - for use in GO "column 17"
• Distant orthologs
• S.c. gene no pombe orthologs
• ​Ontologies used so far and examples
• Wild-type Pombe characteristics
• Example genes with various features

Reports

• Progress Reports

Mailing Lists

• ​pombelist - the fission yeast community mailing list (Mailman info page)
• ​SourceForge mailing lists - topics parallel trackers

Trackers

• ​SourceForge trackers
  • ​Curation tool
• ​Jira tracker for Ensembl
• ​Community helpdesk tracker

The PomBase Team

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For a complete list of local wiki pages, see TitleIndex.