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Title
Bioinformatics for the Human Microbiome Project
Authors
Keywords
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Journal
PLoS Computational Biology
Volume 8, Issue 11, Pages e1002779
Publisher
Public Library of Science (PLoS)
Online
2012-11-30
DOI
10.1371/journal.pcbi.1002779
References
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Note: Only part of the references are listed.- Selection of primers for optimal taxonomic classification of environmental 16S rRNA gene sequences
- (2012) David A W Soergel et al. ISME Journal
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- (2011) Sergey Koren et al. BIOINFORMATICS
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- (2011) Bo Liu et al. BMC GENOMICS
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- (2011) B. J. Haas et al. GENOME RESEARCH
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- (2011) Chengwei Luo et al. ISME Journal
- Enterotypes of the human gut microbiome
- (2011) Manimozhiyan Arumugam et al. NATURE
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- (2011) Justin Kuczynski et al. NATURE REVIEWS GENETICS
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- (2011) M. Kanehisa et al. NUCLEIC ACIDS RESEARCH
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- (2011) G. D. Wu et al. SCIENCE
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- (2010) Susan M. Huse et al. ENVIRONMENTAL MICROBIOLOGY
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- (2010) P. J. Turnbaugh et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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- (2010) J. G. Caporaso et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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- (2010) J. Ravel et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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- (2010) et al. SCIENCE
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- (2009) Daniel N Frank et al. CURRENT OPINION IN GASTROENTEROLOGY
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