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Bacterial, fungal, and interkingdom microbiome features of exclusively breastfeeding dyads are associated with infant age, antibiotic exposure, and birth mode.
Heisel T, Johnson AJ, Gonia S, Dillon A, Skalla E, Haapala J, Jacobs KM, Nagel E, Pierce S, Fields D, Demerath E, Knights D, Gale CA. Heisel T, et al. Among authors: knights d. Front Microbiol. 2022 Nov 17;13:1050574. doi: 10.3389/fmicb.2022.1050574. eCollection 2022. Front Microbiol. 2022. PMID: 36466688 Free PMC article.
Human Cytomegalovirus in breast milk is associated with milk composition, the infant gut microbiome, and infant growth.
Johnson KE, Heisel T, Fields DA, Isganaitis E, Jacobs KM, Knights D, Lock EF, Rudolph MC, Gale CA, Schleiss MR, Albert FW, Demerath EW, Blekhman R. Johnson KE, et al. Among authors: knights d. bioRxiv [Preprint]. 2023 Jul 19:2023.07.19.549370. doi: 10.1101/2023.07.19.549370. bioRxiv. 2023. Update in: Nat Commun. 2024 Jul 23;15(1):6216. doi: 10.1038/s41467-024-50282-4 PMID: 37503212 Free PMC article. Updated. Preprint.
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: knights d. 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.
Direct sequencing of the human microbiome readily reveals community differences.
Kuczynski J, Costello EK, Nemergut DR, Zaneveld J, Lauber CL, Knights D, Koren O, Fierer N, Kelley ST, Ley RE, Gordon JI, Knight R. Kuczynski J, et al. Among authors: knights d. Genome Biol. 2010;11(5):210. doi: 10.1186/gb-2010-11-5-210. Epub 2010 May 5. Genome Biol. 2010. PMID: 20441597 Free PMC article. Review.
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. 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.
Supervised classification of human microbiota.
Knights D, Costello EK, Knight R. Knights D, et al. FEMS Microbiol Rev. 2011 Mar;35(2):343-59. doi: 10.1111/j.1574-6976.2010.00251.x. Epub 2010 Oct 7. FEMS Microbiol Rev. 2011. PMID: 21039646 Free article. Review.
157 results