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Improving microbial phylogeny with citizen science within a mass-market video game.
Sarrazin-Gendron R, Ghasemloo Gheidari P, Butyaev A, Keding T, Cai E, Zheng J, Mutalova R, Mounthanyvong J, Zhu Y, Nazarova E, Drogaris C, Erhart K; Borderlands Science Development Team; Borderlands Science players; Brouillette A, Richard G, Pitchford R, Caisse S, Blanchette M, McDonald D, Knight R, Szantner A, Waldispühl J. Sarrazin-Gendron R, et al. Among authors: mcdonald d. Nat Biotechnol. 2024 Apr 15. doi: 10.1038/s41587-024-02175-6. Online ahead of print. Nat Biotechnol. 2024. PMID: 38622344
Generation of accurate, expandable phylogenomic trees with uDance.
Balaban M, Jiang Y, Zhu Q, McDonald D, Knight R, Mirarab S. Balaban M, et al. Among authors: mcdonald d. Nat Biotechnol. 2024 May;42(5):768-777. doi: 10.1038/s41587-023-01868-8. Epub 2023 Jul 27. Nat Biotechnol. 2024. PMID: 37500914 Free PMC article.
Context-aware dimensionality reduction deconvolutes gut microbial community dynamics.
Martino C, Shenhav L, Marotz CA, Armstrong G, McDonald D, Vázquez-Baeza Y, Morton JT, Jiang L, Dominguez-Bello MG, Swafford AD, Halperin E, Knight R. Martino C, et al. Among authors: mcdonald d. Nat Biotechnol. 2021 Feb;39(2):165-168. doi: 10.1038/s41587-020-0660-7. Epub 2020 Aug 31. Nat Biotechnol. 2021. PMID: 32868914 Free PMC article.
You are what you excrete.
Guccione C, McDonald D, Fielding-Miller R, Curtius K, Knight R. Guccione C, et al. Among authors: mcdonald d. Nat Microbiol. 2023 Jun;8(6):1002-1003. doi: 10.1038/s41564-023-01395-x. Nat Microbiol. 2023. PMID: 37231087 No abstract available.
Striped UniFrac: enabling microbiome analysis at unprecedented scale.
McDonald D, Vázquez-Baeza Y, Koslicki D, McClelland J, Reeve N, Xu Z, Gonzalez A, Knight R. McDonald D, et al. Nat Methods. 2018 Nov;15(11):847-848. doi: 10.1038/s41592-018-0187-8. Nat Methods. 2018. PMID: 30377368 Free PMC article. No abstract available.
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.
Context and the human microbiome.
McDonald D, Birmingham A, Knight R. McDonald D, et al. Microbiome. 2015 Nov 4;3:52. doi: 10.1186/s40168-015-0117-2. Microbiome. 2015. PMID: 26530830 Free PMC article. Review.
1,662 results