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dc.contributor.authorPinto, JP
dc.contributor.authorMachado, RSR
dc.contributor.authorMagno, Ramiro
dc.contributor.authorOliveira, DV
dc.contributor.authorMachado, S
dc.contributor.authorVarzielas Pego de Andrade, Raquel Gláucia
dc.contributor.authorBragança, J
dc.contributor.authordos Santos Duarte, Guilhermina Isabel
dc.contributor.authorFutschik, Matthias
dc.date.accessioned2017-10-30T19:17:45Z
dc.date.available2017-10-30T19:17:45Z
dc.date.issued2018-01-04
dc.identifier.issn0305-1048
dc.identifier.issn1362-4962
dc.identifier.urihttp://hdl.handle.net/10026.1/10117
dc.description.abstract

Transcriptomic data have become a fundamental resource for stem cell (SC) biologists as well as for a wider research audience studying SC-related processes such as aging, embryonic development and prevalent diseases including cancer, diabetes and neurodegenerative diseases. Access and analysis of the growing amount of freely available transcriptomics datasets for SCs, however, are not trivial tasks. Here, we present StemMapper, a manually curated gene expression database and comprehensive resource for SC research, built on integrated data for different lineages of human and mouse SCs. It is based on careful selection, standardized processing and stringent quality control of relevant transcriptomics datasets to minimize artefacts, and includes currently over 960 transcriptomes covering a broad range of SC types. Each of the integrated datasets was individually inspected and manually curated. StemMapper's user-friendly interface enables fast querying, comparison, and interactive visualization of quality-controlled SC gene expression data in a comprehensive manner. A proof-of-principle analysis discovering novel putative astrocyte/neural SC lineage markers exemplifies the utility of the integrated data resource. We believe that StemMapper can open the way for new insights and advances in SC research by greatly simplifying the access and analysis of SC transcriptomic data. StemMapper is freely accessible at http://stemmapper.sysbiolab.eu.

dc.format.extentD788-D793
dc.format.mediumPrint
dc.languageen
dc.language.isoeng
dc.publisherOxford University Press (OUP)
dc.subjectAstrocytes
dc.subjectCell Lineage
dc.subjectData Collection
dc.subjectData Curation
dc.subjectDatabases, Genetic
dc.subjectDatasets as Topic
dc.subjectGene Expression
dc.subjectHumans
dc.subjectNeural Stem Cells
dc.subjectPrincipal Component Analysis
dc.subjectStem Cells
dc.subjectUser-Computer Interface
dc.subjectWorkflow
dc.titleStemMapper: a curated gene expression database for stem cell lineage analysis
dc.typejournal-article
dc.typeJournal Article
dc.typeResearch Support, Non-U.S. Gov't
plymouth.author-urlhttps://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000419550700117&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=11bb513d99f797142bcfeffcc58ea008
plymouth.issueD1
plymouth.volume46
plymouth.publication-statusPublished
plymouth.journalNucleic Acids Research
dc.identifier.doi10.1093/nar/gkx921
plymouth.organisational-group/Plymouth
plymouth.organisational-group/Plymouth/Faculty of Health
plymouth.organisational-group/Plymouth/Users by role
dc.publisher.placeEngland
dcterms.dateAccepted2017-10-05
dc.identifier.eissn1362-4962
dc.rights.embargoperiodNot known
rioxxterms.versionofrecord10.1093/nar/gkx921
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserved
rioxxterms.licenseref.startdate2018-01-04
rioxxterms.typeJournal Article/Review


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