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Multivariable association discovery in population-scale meta-omics studies.
PLoS Comput Biol. 2021 Nov 16;17(11):e1009442. doi: 10.1371/journal.pcbi.1009442. eCollection 2021 Nov.
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The Pretreatment Gut Microbiome Is Associated With Lack of Response to Methotrexate in New-Onset Rheumatoid Arthritis.
Arthritis Rheumatol. 2021 Jun;73(6):931-942. doi: 10.1002/art.41622. Epub 2021 May 2.
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A Two-Way Interaction between Methotrexate and the Gut Microbiota of Male Sprague-Dawley Rats.
J Proteome Res. 2020 Aug 7;19(8):3326-3339. doi: 10.1021/acs.jproteome.0c00230. Epub 2020 Jul 6.
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Mechanism-of-Action Classification of Antibiotics by Global Transcriptome Profiling.
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Using MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis.
Curr Protoc Bioinformatics. 2019 Dec;68(1):e86. doi: 10.1002/cpbi.86.
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Intestinal Permeability and Drug Absorption: Predictive Experimental, Computational and In Vivo Approaches.
Pharmaceutics. 2019 Aug 13;11(8):411. doi: 10.3390/pharmaceutics11080411.
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Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.
Nat Biotechnol. 2019 Aug;37(8):852-857. doi: 10.1038/s41587-019-0209-9.
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fastp: an ultra-fast all-in-one FASTQ preprocessor.
Bioinformatics. 2018 Sep 1;34(17):i884-i890. doi: 10.1093/bioinformatics/bty560.
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Species-level functional profiling of metagenomes and metatranscriptomes.
Nat Methods. 2018 Nov;15(11):962-968. doi: 10.1038/s41592-018-0176-y. Epub 2018 Oct 30.
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Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree.
Mol Biol Evol. 2018 Dec 1;35(12):3041-3043. doi: 10.1093/molbev/msy194.

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