| Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing. | |
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MedLine Citation:
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PMID: 23202435 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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High-throughput sequencing has revolutionized microbial ecology, but read quality remains a considerable barrier to accurate taxonomy assignment and α-diversity assessment for microbial communities. We demonstrate that high-quality read length and abundance are the primary factors differentiating correct from erroneous reads produced by Illumina GAIIx, HiSeq and MiSeq instruments. We present guidelines for user-defined quality-filtering strategies, enabling efficient extraction of high-quality data and facilitating interpretation of Illumina sequencing results. |
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Authors:
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Nicholas A Bokulich; Sathish Subramanian; Jeremiah J Faith; Dirk Gevers; Jeffrey I Gordon; Rob Knight; David A Mills; J Gregory Caporaso |
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Publication Detail:
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Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't Date: 2012-12-02 |
Journal Detail:
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Title: Nature methods Volume: 10 ISSN: 1548-7105 ISO Abbreviation: Nat. Methods Publication Date: 2013 Jan |
Date Detail:
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Created Date: 2012-12-27 Completed Date: 2013-04-09 Revised Date: 2013-04-16 |
Medline Journal Info:
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Nlm Unique ID: 101215604 Medline TA: Nat Methods Country: United States |
Other Details:
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Languages: eng Pagination: 57-9 Citation Subset: IM |
Affiliation:
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Department of Viticulture and Enology, University of California, Davis, Davis, California, USA. |
Export Citation:
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APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
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Biodiversity* High-Throughput Nucleotide Sequencing / methods* Humans Quality Control* Sequence Analysis, DNA / methods* |
| Grant Support | |
ID/Acronym/Agency:
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DK78669/DK/NIDDK NIH HHS; P01 DK078669/DK/NIDDK NIH HHS; R01 HD059127/HD/NICHD NIH HHS; R01HD059127/HD/NICHD NIH HHS; U54HG004969/HG/NHGRI NIH HHS; //Howard Hughes Medical Institute |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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