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Interpreting tree ensemble machine learning models with endoR.
Ruaud A, Pfister N, Ley RE, Youngblut ND. Ruaud A, et al. Among authors: ley re. PLoS Comput Biol. 2022 Dec 14;18(12):e1010714. doi: 10.1371/journal.pcbi.1010714. eCollection 2022 Dec. PLoS Comput Biol. 2022. PMID: 36516158 Free PMC article.
Large-scale replicated field study of maize rhizosphere identifies heritable microbes.
Walters WA, Jin Z, Youngblut N, Wallace JG, Sutter J, Zhang W, González-Peña A, Peiffer J, Koren O, Shi Q, Knight R, Glavina Del Rio T, Tringe SG, Buckler ES, Dangl JL, Ley RE. Walters WA, et al. Among authors: ley re. Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):7368-7373. doi: 10.1073/pnas.1800918115. Epub 2018 Jun 25. Proc Natl Acad Sci U S A. 2018. PMID: 29941552 Free PMC article.
Human Salivary Amylase Gene Copy Number Impacts Oral and Gut Microbiomes.
Poole AC, Goodrich JK, Youngblut ND, Luque GG, Ruaud A, Sutter JL, Waters JL, Shi Q, El-Hadidi M, Johnson LM, Bar HY, Huson DH, Booth JG, Ley RE. Poole AC, et al. Among authors: ley re. Cell Host Microbe. 2019 Apr 10;25(4):553-564.e7. doi: 10.1016/j.chom.2019.03.001. Cell Host Microbe. 2019. PMID: 30974084 Free article.
DeepMAsED: evaluating the quality of metagenomic assemblies.
Mineeva O, Rojas-Carulla M, Ley RE, Schölkopf B, Youngblut ND. Mineeva O, et al. Among authors: ley re. Bioinformatics. 2020 May 1;36(10):3011-3017. doi: 10.1093/bioinformatics/btaa124. Bioinformatics. 2020. PMID: 32096824
142 results