Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution

We developed a fast method for denoising pyrosequencing for community 16S rRNA analysis. We observe a 2–4 fold reduction in the number of observed OTUs (operational taxonomic units) comparing denoised with non-denoised data. ~50,000 sequences can be denoised on a laptop within an hour, two orders of...

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Detalles Bibliográficos
Autores principales: Reeder, Jens, Knight, Rob
Formato: Texto
Lenguaje:English
Publicado: 2010
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2945879/
https://www.ncbi.nlm.nih.gov/pubmed/20805793
http://dx.doi.org/10.1038/nmeth0910-668b
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author Reeder, Jens
Knight, Rob
author_facet Reeder, Jens
Knight, Rob
author_sort Reeder, Jens
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description We developed a fast method for denoising pyrosequencing for community 16S rRNA analysis. We observe a 2–4 fold reduction in the number of observed OTUs (operational taxonomic units) comparing denoised with non-denoised data. ~50,000 sequences can be denoised on a laptop within an hour, two orders of magnitude faster than published techniques. We demonstrate the effects of denoising on alpha and beta diversity of large 16S rRNA datasets.
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spelling pubmed-29458792011-03-01 Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution Reeder, Jens Knight, Rob Nat Methods Article We developed a fast method for denoising pyrosequencing for community 16S rRNA analysis. We observe a 2–4 fold reduction in the number of observed OTUs (operational taxonomic units) comparing denoised with non-denoised data. ~50,000 sequences can be denoised on a laptop within an hour, two orders of magnitude faster than published techniques. We demonstrate the effects of denoising on alpha and beta diversity of large 16S rRNA datasets. 2010-09 /pmc/articles/PMC2945879/ /pubmed/20805793 http://dx.doi.org/10.1038/nmeth0910-668b Text en Users may view, print, copy, download and text and data- mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Reeder, Jens
Knight, Rob
Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title_full Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title_fullStr Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title_full_unstemmed Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title_short Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
title_sort rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2945879/
https://www.ncbi.nlm.nih.gov/pubmed/20805793
http://dx.doi.org/10.1038/nmeth0910-668b
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AT knightrob rapiddenoisingofpyrosequencingamplicondataexploitingtherankabundancedistribution

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