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Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat.
Harris JK, Caporaso JG, Walker JJ, Spear JR, Gold NJ, Robertson CE, Hugenholtz P, Goodrich J, McDonald D, Knights D, Marshall P, Tufo H, Knight R, Pace NR. Harris JK, et al. Among authors: mcdonald d. ISME J. 2013 Jan;7(1):50-60. doi: 10.1038/ismej.2012.79. Epub 2012 Jul 26. ISME J. 2013. PMID: 22832344 Free PMC article.
Collaborative cloud-enabled tools allow rapid, reproducible biological insights.
Ragan-Kelley B, Walters WA, McDonald D, Riley J, Granger BE, Gonzalez A, Knight R, Perez F, Caporaso JG. Ragan-Kelley B, et al. Among authors: mcdonald d. ISME J. 2013 Mar;7(3):461-4. doi: 10.1038/ismej.2012.123. Epub 2012 Oct 25. ISME J. 2013. PMID: 23096404 Free PMC article. No abstract available.
From molecules to dynamic biological communities.
McDonald D, Vázquez-Baeza Y, Walters WA, Caporaso JG, Knight R. McDonald D, et al. Biol Philos. 2013 Mar;28(2):241-259. doi: 10.1007/s10539-013-9364-4. Epub 2013 Feb 5. Biol Philos. 2013. PMID: 23483075 Free PMC article.
Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences.
Rideout JR, He Y, Navas-Molina JA, Walters WA, Ursell LK, Gibbons SM, Chase J, McDonald D, Gonzalez A, Robbins-Pianka A, Clemente JC, Gilbert JA, Huse SM, Zhou HW, Knight R, Caporaso JG. Rideout JR, et al. Among authors: mcdonald d. PeerJ. 2014 Aug 21;2:e545. doi: 10.7717/peerj.545. eCollection 2014. PeerJ. 2014. PMID: 25177538 Free PMC article.
Rethinking "enterotypes".
Knights D, Ward TL, McKinlay CE, Miller H, Gonzalez A, McDonald D, Knight R. Knights D, et al. Among authors: mcdonald d. Cell Host Microbe. 2014 Oct 8;16(4):433-7. doi: 10.1016/j.chom.2014.09.013. Cell Host Microbe. 2014. PMID: 25299329 Free PMC article.
Ribosomal RNA, the lens into life.
McDonald D, Xu Z, Hyde ER, Knight R. McDonald D, et al. RNA. 2015 Apr;21(4):692-4. doi: 10.1261/rna.050799.115. RNA. 2015. PMID: 25780194 Free PMC article. No abstract available.
1,711 results