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Supervised classification of microbiota mitigates mislabeling errors.
Knights D, Kuczynski J, Koren O, Ley RE, Field D, Knight R, DeSantis TZ, Kelley ST. Knights D, et al. Among authors: desantis tz. ISME J. 2011 Apr;5(4):570-3. doi: 10.1038/ismej.2010.148. Epub 2010 Oct 7. ISME J. 2011. PMID: 20927137 Free PMC article. No abstract available.
A framework for human microbiome research.
Human Microbiome Project Consortium. Human Microbiome Project Consortium. Nature. 2012 Jun 13;486(7402):215-21. doi: 10.1038/nature11209. Nature. 2012. PMID: 22699610 Free PMC article.
PyNAST: a flexible tool for aligning sequences to a template alignment.
Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen GL, Knight R. Caporaso JG, et al. Among authors: desantis tz. Bioinformatics. 2010 Jan 15;26(2):266-7. doi: 10.1093/bioinformatics/btp636. Epub 2009 Nov 13. Bioinformatics. 2010. PMID: 19914921 Free PMC article.
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, Sterk P, Arumugam M, Bailey M, Baumgartner L, Birren BW, Blaser MJ, Bonazzi V, Booth T, Bork P, Bushman FD, Buttigieg PL, Chain PS, Charlson E, Costello EK, Huot-Creasy H, Dawyndt P, DeSantis T, Fierer N, Fuhrman JA, Gallery RE, Gevers D, Gibbs RA, San Gil I, Gonzalez A, Gordon JI, Guralnick R, Hankeln W, Highlander S, Hugenholtz P, Jansson J, Kau AL, Kelley ST, Kennedy J, Knights D, Koren O, Kuczynski J, Kyrpides N, Larsen R, Lauber CL, Legg T, Ley RE, Lozupone CA, Ludwig W, Lyons D, Maguire E, Methé BA, Meyer F, Muegge B, Nakielny S, Nelson KE, Nemergut D, Neufeld JD, Newbold LK, Oliver AE, Pace NR, Palanisamy G, Peplies J, Petrosino J, Proctor L, Pruesse E, Quast C, Raes J, Ratnasingham S, Ravel J, Relman DA, Assunta-Sansone S, Schloss PD, Schriml L, Sinha R, Smith MI, Sodergren E, Spo A, Stombaugh J, Tiedje JM, Ward DV, Weinstock GM, Wendel D, White O, Whiteley A, Wilke A, Wortman JR, Yatsunenko T, Glöckner FO. Yilmaz P, et al. Nat Biotechnol. 2011 May;29(5):415-20. doi: 10.1038/nbt.1823. Nat Biotechnol. 2011. PMID: 21552244 Free PMC article.
An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile.
Miezeiewski M, Schnaufer T, Muravsky M, Wang S, Caro-Aguilar I, Secore S, Thiriot DS, Hsu C, Rogers I, DeSantis T, Kuczynski J, Probst AJ, Chehoud C, Steger R, Warrington J, Bodmer JL, Heinrichs JH. Miezeiewski M, et al. ISME J. 2015 Feb;9(2):321-32. doi: 10.1038/ismej.2014.127. Epub 2014 Jul 18. ISME J. 2015. PMID: 25036923 Free PMC article.
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons.
Haas BJ, Gevers D, Earl AM, Feldgarden M, Ward DV, Giannoukos G, Ciulla D, Tabbaa D, Highlander SK, Sodergren E, Methé B, DeSantis TZ; Human Microbiome Consortium; Petrosino JF, Knight R, Birren BW. Haas BJ, et al. Among authors: desantis tz. Genome Res. 2011 Mar;21(3):494-504. doi: 10.1101/gr.112730.110. Epub 2011 Jan 6. Genome Res. 2011. PMID: 21212162 Free PMC article.
85 results