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QIIME allows analysis of high-throughput community sequencing data.
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. Caporaso JG, et al. Among authors: ley re. Nat Methods. 2010 May;7(5):335-6. doi: 10.1038/nmeth.f.303. Epub 2010 Apr 11. Nat Methods. 2010. PMID: 20383131 Free PMC article. No abstract available.
Host remodeling of the gut microbiome and metabolic changes during pregnancy.
Koren O, Goodrich JK, Cullender TC, Spor A, Laitinen K, Bäckhed HK, Gonzalez A, Werner JJ, Angenent LT, Knight R, Bäckhed F, Isolauri E, Salminen S, Ley RE. Koren O, et al. Among authors: ley re. Cell. 2012 Aug 3;150(3):470-80. doi: 10.1016/j.cell.2012.07.008. Cell. 2012. PMID: 22863002 Free PMC article.
Transient inability to manage proteobacteria promotes chronic gut inflammation in TLR5-deficient mice.
Carvalho FA, Koren O, Goodrich JK, Johansson ME, Nalbantoglu I, Aitken JD, Su Y, Chassaing B, Walters WA, González A, Clemente JC, Cullender TC, Barnich N, Darfeuille-Michaud A, Vijay-Kumar M, Knight R, Ley RE, Gewirtz AT. Carvalho FA, et al. Among authors: ley re. Cell Host Microbe. 2012 Aug 16;12(2):139-52. doi: 10.1016/j.chom.2012.07.004. Epub 2012 Aug 2. Cell Host Microbe. 2012. PMID: 22863420 Free PMC article.
Conducting a microbiome study.
Goodrich JK, Di Rienzi SC, Poole AC, Koren O, Walters WA, Caporaso JG, Knight R, Ley RE. Goodrich JK, et al. Among authors: ley re. Cell. 2014 Jul 17;158(2):250-262. doi: 10.1016/j.cell.2014.06.037. Cell. 2014. PMID: 25036628 Free PMC article.
Human genetics shape the gut microbiome.
Goodrich JK, Waters JL, Poole AC, Sutter JL, Koren O, Blekhman R, Beaumont M, Van Treuren W, Knight R, Bell JT, Spector TD, Clark AG, Ley RE. Goodrich JK, et al. Among authors: ley re. Cell. 2014 Nov 6;159(4):789-99. doi: 10.1016/j.cell.2014.09.053. Cell. 2014. PMID: 25417156 Free PMC article.
148 results