How does Pombase use resources effectively? With a little help from our friends...@rcsbPDB @news4go @rhea_db @MonarchInit @alliancegenome @usejbrowse @yeastgenome @uniprot @InterProDB @Micropub7n Thread/ academic.oup.com/genetics/ar…
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2/ Our new database update. We describe our new summary views, previously providing only genome context using @usejbrowse .....
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3/.... now complemented by additional views i) a protein feature summary and detail view using @rcsbPDB feature viewer software.....
Feb 22, 2024 · 8:24 AM UTC
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5/........we added reactions to GO molecular function term pages by embedding the @rhea_db
reaction widget
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6/ PomBase (pombase.org), was recently awarded @globalbiodata/@ELIXIREurope GBCR/CDR status. This involved compliance across a range of indicators around scientific quality and coverage. We demonstrate an increase in ontologised (structured) annotation...
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7/ and also discuss issues with course metrics like annotation growth for knowledgebases. Annotation⬆️ does not necessarily == Knowledge ⬆️ ......
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8/. We describe some of the difficulties associated with demonstrating compliance with qualitative indicators (ie scientific impact and "the counterfactual"). We describe some of the metrics used @pombase to assess completeness i.e. tracking #UnknownProteins:
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9/We demonstrate the connections and dependancies between databases by @Pombase data sharing outwards to @biogrid @RNAcentral @MonarchInit @ENASequence @news4go @ensemblgenomes @PfamDB & inwards from @genenames @yeastgenome @InterProDB @news4go @biogrid @uniprot etc..
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10/. We continue to work with our amazing community to ensure curation coverage and accuracy. Check out the awesome recent science depending on @pombase in the work cited in the intro from @Gould_Lab @grewalsh @ASadylab @TheBraunLab @ZandersLab @LuskingL and many others...
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