Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-07-24

AUTHORS

Evan Bolyen, Jai Ram Rideout, Matthew R. Dillon, Nicholas A. Bokulich, Christian C. Abnet, Gabriel A. Al-Ghalith, Harriet Alexander, Eric J. Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E. Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J. Brislawn, C. Titus Brown, Benjamin J. Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily K. Cope, Ricardo Da Silva, Christian Diener, Pieter C. Dorrestein, Gavin M. Douglas, Daniel M. Durall, Claire Duvallet, Christian F. Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M. Gauglitz, Sean M. Gibbons, Deanna L. Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin A. Huttley, Stefan Janssen, Alan K. Jarmusch, Lingjing Jiang, Benjamin D. Kaehler, Kyo Bin Kang, Christopher R. Keefe, Paul Keim, Scott T. Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G. I. Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D. Martin, Daniel McDonald, Lauren J. McIver, Alexey V. Melnik, Jessica L. Metcalf, Sydney C. Morgan, Jamie T. Morton, Ahmad Turan Naimey, Jose A. Navas-Molina, Louis Felix Nothias, Stephanie B. Orchanian, Talima Pearson, Samuel L. Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S. Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R. Spear, Austin D. Swafford, Luke R. Thompson, Pedro J. Torres, Pauline Trinh, Anupriya Tripathi, Peter J. Turnbaugh, Sabah Ul-Hasan, Justin J. J. van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C. Weber, Charles H. D. Williamson, Amy D. Willis, Zhenjiang Zech Xu, Jesse R. Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J. Gregory Caporaso

ABSTRACT

N/A

PAGES

852-857

Journal

TITLE

Nature Biotechnology

ISSUE

8

VOLUME

37

Author Affiliations

  • Center for Applied Microbiome Science, Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, USA
  • Metabolic Epidemiology Branch, National Cancer Institute, Rockville, MD, USA
  • Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN, USA
  • Department of Population Health and Reproduction, University of California, Davis, Davis, CA, USA
  • Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA, USA
  • Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
  • Centre for Integrative Biology, University of Trento, Trento, Italy
  • University of Chinese Academy of Sciences, Beijing, China
  • Department of Microbiology and Immunology, University of California, San Francisco, San Francisco, CA, USA
  • Hepatology, Children’s Hospital of Philadelphia, Philadelphia, PA, USA
  • Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
  • Bioinformatics Research Center, North Carolina State University, Raleigh, NC, USA
  • Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, San Diego, CA, USA
  • Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
  • Institute for Systems Biology, Seattle, WA, USA
  • Department of Microbiology and Immunology, Dalhousie University, Halifax, Nova Scotia, Canada
  • Irving K. Barber School of Arts and Sciences, University of British Columbia, Kelowna, British Columbia, Canada
  • Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
  • A. Watson Armour III Center for Animal Health and Welfare, Aquarium Microbiome Project, John G. Shedd Aquarium, Chicago, IL, USA
  • Department of Congenital Disorders, Statens Serum Institut, Copenhagen, Denmark
  • Department of Biology, University of British Columbia Okanagan, Okanagan, British Columbia, Canada
  • Department of Medicine, Division of Biomedical Informatics and Personalized Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
  • eScience Institute, University of Washington, Seattle, WA, USA
  • Department of Medicine, University of British Columbia, Kelowna, British Columbia, Canada
  • Department of Pediatrics, University of California San Diego, La Jolla, CA, USA
  • Center for Microbial Ecology, Michigan State University, East Lansing, MI, USA
  • Statistics Department, Stanford University, Palo Alto, CA, USA
  • Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA
  • Broad Institute of MIT and Harvard, Cambridge, MA, USA
  • Research School of Biology, The Australian National University, Canberra, Australian Capital Territory, Australia
  • Department of Pediatric Oncology, Hematology and Clinical Immunology, Heinrich-Heine University Dusseldorf, Dusseldorf, Germany
  • Department of Family Medicine and Public Health, University of California San Diego, La Jolla, CA, USA
  • School of Science, University of New South Wales, Canberra, Australian Capital Territory, Australia
  • College of Pharmacy, Sookmyung Women’s University, Seoul, Republic of Korea
  • Department of Biology, San Diego State University, San Diego, CA, USA
  • Biotechnology Institute, University of Minnesota, Saint Paul, MN, USA
  • Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
  • Department of Pediatrics, University of California San Diego, La Jolla, California, USA
  • Department of Pharmacology, Dalhousie University, Halifax, Nova Scotia, Canada
  • Science Education, Howard Hughes Medical Institute, Ashburn, VA, USA
  • Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
  • Centre of Excellence for Plant and Microbial Sciences (CEPAMS), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences & John Innes Centre, Beijing, China
  • Department of Computer Science & Engineering, University of California San Diego, La Jolla, CA, USA
  • Department of Statistics, University of Washington, Seattle, WA, USA
  • Department of Animal Science, Colorado State University, Fort Collins, CO, USA
  • Irving K. Barber School of Arts and Sciences, Unit 2 (Biology), University of British Columbia, Kelowna, British Columbia, Canada
  • Google LLC, Mountain View, CA, USA
  • Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA
  • School of STEM, University of Washington Bothell, Bothell, WA, USA
  • Department of Biological Sciences, Webster University, St. Louis, MO, USA
  • Agricultural Research Service, Genomics and Bioinformatics Research Unit, United States Department of Agriculture, Gainesville, FL, USA
  • College of Medicine, Department of Biomedical Informatics, University of Arkansas for Medical Sciences, Little Rock, AR, USA
  • Department of Civil and Environmental Engineering, Colorado School of Mines, Golden, CO, USA
  • Ocean Chemistry and Ecosystems Division, Atlantic Oceanographic and Meteorological Laboratory, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
  • Department of Environmental and Occupational Health Sciences, University of Washington, Seattle, WA, USA
  • Division of Biological Sciences, University of California San Diego, San Diego, CA, USA
  • Department of Microbiology and Immunology, University of California San Francisco, San Francisco, CA, USA
  • Quantitative and Systems Biology Graduate Program, University of California Merced, Merced, CA, USA
  • Bioinformatics Group, Wageningen University, Wageningen, the Netherlands
  • Department of Mathematics, University of Arizona, Tucson, AZ, USA
  • Department of Microbiome Science, Max Planck Institute for Developmental Biology, Tübingen, Germany
  • National Laboratory Service, Environment Agency, Starcross, UK
  • College of Agriculture and Life Sciences, University of Florida, Gainesville, FL, USA
  • Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, USA
  • Department of Biostatistics, University of Washington, Seattle, WA, USA
  • School of STEM, Division of Biological Sciences, University of Washington Bothell, Bothell, WA, USA
  • Merck & Co. Inc., Kenilworth, NJ, USA
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/s41587-019-0209-9

    DOI

    http://dx.doi.org/10.1038/s41587-019-0209-9

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1119809350

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/31341288


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