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Measuring and mitigating PCR bias in microbiota datasets.
Silverman JD, Bloom RJ, Jiang S, Durand HK, Dallow E, Mukherjee S, David LA. Silverman JD, et al. PLoS Comput Biol. 2021 Jul 6;17(7):e1009113. doi: 10.1371/journal.pcbi.1009113. eCollection 2021 Jul. PLoS Comput Biol. 2021. PMID: 34228723 Free PMC article.
Naught all zeros in sequence count data are the same.
Silverman JD, Roche K, Mukherjee S, David LA. Silverman JD, et al. Comput Struct Biotechnol J. 2020 Sep 28;18:2789-2798. doi: 10.1016/j.csbj.2020.09.014. eCollection 2020. Comput Struct Biotechnol J. 2020. PMID: 33101615 Free PMC article. Review.
Diversity of plant DNA in stool is linked to dietary quality, age, and household income.
Petrone BL, Aqeel A, Jiang S, Durand HK, Dallow EP, McCann JR, Dressman HK, Hu Z, Tenekjian CB, Yancy WS Jr, Lin PH, Scialla JJ, Seed PC, Rawls JF, Armstrong SC, Stevens J, David LA. Petrone BL, et al. Proc Natl Acad Sci U S A. 2023 Jul 4;120(27):e2304441120. doi: 10.1073/pnas.2304441120. Epub 2023 Jun 27. Proc Natl Acad Sci U S A. 2023. PMID: 37368926 Free PMC article.
Ecological memory of prior nutrient exposure in the human gut microbiome.
Letourneau J, Holmes ZC, Dallow EP, Durand HK, Jiang S, Carrion VM, Gupta SK, Mincey AC, Muehlbauer MJ, Bain JR, David LA. Letourneau J, et al. ISME J. 2022 Nov;16(11):2479-2490. doi: 10.1038/s41396-022-01292-x. Epub 2022 Jul 23. ISME J. 2022. PMID: 35871250 Free PMC article.
18 results