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dc.contributor.authorLock, Antoniaen
dc.contributor.authorRutherford, Kimen
dc.contributor.authorHarris, Midorien
dc.contributor.authorHayles, Jacquelineen
dc.contributor.authorOliver, Stephenen
dc.contributor.authorBähler, Jürgen
dc.contributor.authorWood, Valerieen
dc.date.accessioned2018-11-22T00:33:16Z
dc.date.available2018-11-22T00:33:16Z
dc.date.issued2019-01en
dc.identifier.issn0305-1048
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/285693
dc.description.abstractPomBase (www.pombase.org), the model organism database for the fission yeast Schizosaccharomyces pombe, has undergone a complete redevelopment, resulting in a more fully integrated, better-performing service. The new infrastructure supports daily data updates as well as fast, efficient querying, and smoother navigation within and between pages. New pages for publications and genotypes provide routes to all data curated from a single source and to all phenotypes associated with a specific genotype, respectively. For ontology-based annotations, improved displays balance comprehensive data coverage with ease of use. The default view now uses ontology structure to provide a concise, non-redundant summary that can be expanded to reveal underlying details and metadata. The phenotype annotation display also offers filtering options to allow users to focus on specific areas of interest. An instance of the JBrowse genome browser has been integrated, facilitating loading of, and intuitive access to, genome-scale datasets. Taken together, the new data and pages, along with improvements in annotation display and querying, allow users to probe connections among different types of data to form a comprehensive view of fission yeast biology. The new PomBase implementation also provides a rich set of modular, reusable tools that can be deployed to create new, or enhance existing, organism-specific databases.
dc.format.mediumPrinten
dc.languageengen
dc.publisherOxford University Press
dc.rightsAttribution 4.0 International
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectSchizosaccharomycesen
dc.subjectGenome, Fungalen
dc.subjectInterneten
dc.subjectSoftwareen
dc.subjectUser-Computer Interfaceen
dc.subjectDatabases, Geneticen
dc.titlePomBase 2018: user-driven reimplementation of the fission yeast database provides rapid and intuitive access to diverse, interconnected information.en
dc.typeArticle
prism.endingPageD827
prism.issueIdentifierD1en
prism.publicationDate2019en
prism.publicationNameNucleic acids researchen
prism.startingPageD821
prism.volume47en
dc.identifier.doi10.17863/CAM.30612
dcterms.dateAccepted2018-10-11en
rioxxterms.versionofrecord10.1093/nar/gky961en
rioxxterms.versionAM*
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.licenseref.startdate2019-01en
dc.contributor.orcidLock, Antonia [0000-0003-1179-5999]
dc.contributor.orcidRutherford, Kim [0000-0001-6277-726X]
dc.contributor.orcidHarris, Midori Akiko [0000-0003-4148-4606]
dc.contributor.orcidOliver, Stephen [0000-0001-6330-7526]
dc.contributor.orcidBähler, Jürg [0000-0003-4036-1532]
dc.contributor.orcidWood, Valerie [0000-0001-6330-7526]
dc.identifier.eissn1362-4962
rioxxterms.typeJournal Article/Reviewen
pubs.funder-project-idWELLCOME TRUST (104967/Z/14/Z)


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Attribution 4.0 International
Except where otherwise noted, this item's licence is described as Attribution 4.0 International