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The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities.
Nucleic Acids Res. 2020 Jan 8;48(D1):D606-D612. doi: 10.1093/nar/gkz943.
Nucleic Acids Res. 2020.
PMID: 31667520
Free PMC article.
A machine learning-based service for estimating quality of genomes using PATRIC.
Parrello B, Butler R, Chlenski P, Olson R, Overbeek J, Pusch GD, Vonstein V, Overbeek R.
Parrello B, et al. Among authors: chlenski p.
BMC Bioinformatics. 2019 Oct 3;20(1):486. doi: 10.1186/s12859-019-3068-y.
BMC Bioinformatics. 2019.
PMID: 31581946
Free PMC article.
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Supervised extraction of near-complete genomes from metagenomic samples: A new service in PATRIC.
Parrello B, Butler R, Chlenski P, Pusch GD, Overbeek R.
Parrello B, et al. Among authors: chlenski p.
PLoS One. 2021 Apr 15;16(4):e0250092. doi: 10.1371/journal.pone.0250092. eCollection 2021.
PLoS One. 2021.
PMID: 33857229
Free PMC article.
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Engineering of increased L-Threonine production in bacteria by combinatorial cloning and machine learning.
Hanke P, Parrello B, Vasieva O, Akins C, Chlenski P, Babnigg G, Henry C, Foflonker F, Brettin T, Antonopoulos D, Stevens R, Fonstein M.
Hanke P, et al. Among authors: chlenski p.
Metab Eng Commun. 2023 Jun 16;17:e00225. doi: 10.1016/j.mec.2023.e00225. eCollection 2023 Dec.
Metab Eng Commun. 2023.
PMID: 37435441
Free PMC article.
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MiSDEED: a synthetic data engine for microbiome study power analysis and study design.
Chlenski P, Hsu M, Pe'er I.
Chlenski P, et al.
Bioinform Adv. 2022 Jun 16;2(1):vbac043. doi: 10.1093/bioadv/vbac043. eCollection 2022.
Bioinform Adv. 2022.
PMID: 36699411
Free PMC article.
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Accurate and robust inference of microbial growth dynamics from metagenomic sequencing reveals personalized growth rates.
Joseph TA, Chlenski P, Litman A, Korem T, Pe'er I.
Joseph TA, et al. Among authors: chlenski p.
Genome Res. 2022 Mar;32(3):558-568. doi: 10.1101/gr.275533.121. Epub 2022 Jan 5.
Genome Res. 2022.
PMID: 34987055
Free PMC article.
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