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dc.contributor.authorLuo, Chengweien_US
dc.contributor.authorKnight, Roben_US
dc.contributor.authorSiljander, Helien_US
dc.contributor.authorKnip, Mikaelen_US
dc.contributor.authorXavier, Ramnik Jen_US
dc.contributor.authorGevers, Dirken_US
dc.date.accessioned2016-05-02T17:02:21Z
dc.date.issued2015en_US
dc.identifier.citationLuo, Chengwei, Rob Knight, Heli Siljander, Mikael Knip, Ramnik J Xavier, and Dirk Gevers. 2015. “ConStrains identifies microbial strains in metagenomic datasets.” Nature biotechnology 33 (10): 1045-1052. doi:10.1038/nbt.3319. http://dx.doi.org/10.1038/nbt.3319.en
dc.identifier.issn1087-0156en
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:26860329
dc.description.abstractAn important fraction of microbial diversity is harbored in strain individuality, so identification of conspecific bacterial strains is imperative for improved understanding of microbial community functions. Limitations in bioinformatics and sequencing technologies have to date precluded strain identification owing to difficulties in phasing short reads to faithfully recover the original strain-level genotypes, which have highly similar sequences. We present ConStrains, an open-source algorithm that identifies conspecific strains from metagenomic sequence data and reconstructs the phylogeny of these strains in microbial communities. The algorithm uses single-nucleotide polymorphism (SNP) patterns in a set of universal genes to infer within-species structures that represent strains. Applying ConStrains to simulated and host-derived data sets provides insights into microbial community dynamics.en
dc.language.isoen_USen
dc.relation.isversionofdoi:10.1038/nbt.3319en
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC4676274/pdf/en
dash.licenseLAAen_US
dc.titleConStrains identifies microbial strains in metagenomic datasetsen
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden
dc.relation.journalNature biotechnologyen
dash.depositing.authorLuo, Chengweien_US
dc.date.available2016-05-02T17:02:21Z
dc.identifier.doi10.1038/nbt.3319*
dash.contributor.affiliatedLuo, Chengwei
dash.contributor.affiliatedXavier, Ramnik


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