Show simple item record

dc.contributor.authorten Hoopen, Petra
dc.contributor.authorFinn, Robert D.
dc.contributor.authorBongo, Lars Ailo
dc.contributor.authorCorre, Erwan
dc.contributor.authorFosso, Bruno
dc.contributor.authorMeyer, Folker
dc.contributor.authorMitchell, Alex
dc.contributor.authorPelletier, Eric
dc.contributor.authorPesole, Graziano
dc.contributor.authorSantamaria, Monica
dc.contributor.authorWillassen, Nils Peder
dc.contributor.authorCochrane, Guy
dc.date.accessioned2019-10-01T16:25:57Z
dc.date.available2019-10-01T16:25:57Z
dc.date.issued2017
dc.identifier.citationten Hoopen, P., et al (2017) The metagenomic data life-cycle: standards and best practices. GigaScience, 6, gix047, pp.1-11. DOI: https://doi.org/10.1093/gigascience/gix047en_US
dc.identifier.urihttp://hdl.handle.net/11329/1080
dc.identifier.urihttp://dx.doi.org/10.25607/OBP-608
dc.description.abstractMetagenomics data analyses from independent studies can only be compared if the analysis workflows are described in a harmonized way. In this overview, we have mapped the landscape of data standards available for the description of essential steps in metagenomics: (i) material sampling, (ii) material sequencing, (iii) data analysis, and (iv) data archiving and publishing. Taking examples from marine research, we summarize essential variables used to describe material sampling processes and sequencing procedures in a metagenomics experiment. These aspects of metagenomics dataset generation have been to some extent addressed by the scientific community, but greater awareness and adoption is still needed. We emphasize the lack of standards relating to reporting how metagenomics datasets are analysed and how the metagenomics data analysis outputs should be archived and published. We propose best practice as a foundation for a community standard to enable reproducibility and better sharing of metagenomics datasets, leading ultimately to greater metagenomics data reuse and repurposing.en_US
dc.language.isoenen_US
dc.rightsAttribution 4.0 International*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.subject.otherMetagenomicsen_US
dc.subject.otherMetadataen_US
dc.subject.otherStandardsen_US
dc.subject.otherSamplingen_US
dc.subject.otherSequencingen_US
dc.titleThe metagenomic data life-cycle: standards and best practices.en_US
dc.typeJournal Contributionen_US
dc.description.refereedRefereeden_US
dc.format.pagerangepp.1-11en_US
dc.identifier.doihttps://doi.org/10.1093/gigascience/gix047
dc.subject.parameterDisciplineParameter Discipline::Cross-disciplineen_US
dc.subject.dmProcessesData Management Practices::Data analysisen_US
dc.bibliographicCitation.titleGigaScienceen_US
dc.bibliographicCitation.volume6en_US
dc.bibliographicCitation.issue8, gix047en_US
dc.description.sdg14en_US
dc.description.bptypeManualen_US
dc.description.bptypeBest Practice
obps.contact.contactnameGuy Cochrane
obps.contact.contactemailcochrane@ebi.ac.uk
obps.resourceurl.publisherhttps://academic.oup.com/gigascience/article/6/8/gix047/3869082en_US


Files in this item

Thumbnail

This item appears in the following Collection(s)

Show simple item record

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