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

被引：14968

作者：

Bolyen, Evan ^{[1
]}

Rideout, Jai Ram ^{[1
]}

Dillon, Matthew R. ^{[1
]}

Bokulich, NicholasA. ^{[1
]}

Abnet, Christian C. ^{[2
]}

Al-Ghalith, Gabriel A. ^{[3
]}

Alexander, Harriet ^{[4
,5
]}

Alm, Eric J. ^{[6
,7
]}

Arumugam, Manimozhiyan ^{[8
]}

Asnicar, Francesco ^{[9
]}

Bai, Yang ^{[10
,11
,12
,13
]}

Bisanz, Jordan E. ^{[14
]}

Bittinger, Kyle ^{[15
,16
]}

Brejnrod, Asker ^{[8
]}

Brislawn, Colin J. ^{[17
]}

Brown, C. Titus ^{[5
]}

Callahan, Benjamin J. ^{[18
,19
]}

Caraballo-Rodriguez, Andres Mauricio ^{[20
]}

Chase, John ^{[1
]}

Cope, Emily K. ^{[1
,21
]}

Da Silva, Ricardo ^{[20
]}

Diener, Christian ^{[22
]}

Dorrestein, Pieter C. ^{[18
]}

Douglas, Gavin M. ^{[23
]}

Durall, Daniel M. ^{[24
]}

Duvallet, Claire ^{[6
]}

Edwardson, Christian F. ^{[25
]}

Ernst, Madeleine ^{[20
,26
]}

Estaki, Mehrbod ^{[27
]}

Fouquier, Jennifer ^{[28
,29
]}

Gauglitz, Julia M. ^{[20
]}

Gibbons, Sean M. ^{[22
,30
]}

Gibson, Deanna L. ^{[31
,32
]}

Gonzalez, Antonio ^{[33
]}

Gorlick, Kestrel ^{[1
]}

Guo, Jiarong ^{[34
]}

Hillmann, Benjamin ^{[35
]}

Holmes, Susan ^{[36
]}

Holste, Hannes ^{[33
,37
]}

Huttenhower, Curtis ^{[38
,39
]}

Huttley, Gavin A. ^{[40
]}

Janssen, Stefan ^{[41
]}

Jarmusch, Alan K. ^{[20
]}

Jiang, Lingjing ^{[42
]}

Kaehler, Benjamin D. ^{[40
,43
]}

Bin Kang, Kyo ^{[20
,44
]}

Keefe, Christopher R. ^{[1
]}

Keim, Paul ^{[1
]}

Kelley, Scott T. ^{[45
]}

Knights, Dan ^{[35
,46
]}

机构：

[1] No Arizona Univ, Ctr Appl Microbiome Sci, Pathogen & Microbiome Inst, Flagstaff, AZ 86011 USA

[2] NCI, Metab Epidemiol Branch, Rockville, MD USA

[3] Univ Minnesota, Dept Comp Sci & Engn, Minneapolis, MN USA

[4] Woods Hole Oceanog Inst, Dept Biol, Woods Hole, MA 02543 USA

[5] Univ Calif Davis, Dept Populat Hlth & Reprod, Davis, CA 95616 USA

[6] MIT, Dept Biol Engn, 77 Massachusetts Ave, Cambridge, MA 02139 USA

[7] MIT, Ctr Microbiome Informat & Therapeut, 77 Massachusetts Ave, Cambridge, MA 02139 USA

[8] Univ Copenhagen, Fac Hlth & Med Sci, Novo Nordisk Fdn, Ctr Basic Metab Res Fac, Copenhagen, Denmark

[9] Univ Trento, Ctr Integrat Biol, Trento, Italy

[10] Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Genom, Beijing, Peoples R China

[11] Chinese Acad Sci, Inst Genet & Dev Biol, Ctr Excellence Plant & Microbial Sci CEPAMS, Beijing, Peoples R China

[12] John Innes Ctr, Beijing, Peoples R China

[13] Univ Chinese Acad Sci, Beijing, Peoples R China

[14] Univ Calif San Francisco, Dept Microbiol & Immunol, San Francisco, CA 94143 USA

[15] Childrens Hosp Philadelphia, Div Gastroenterol & Nutr, Philadelphia, PA 19104 USA

[16] Childrens Hosp Philadelphia, Hepatol, Philadelphia, PA 19104 USA

[17] Pacific Northwest Natl Lab, Earth & Biol Sci Directorate, Richland, WA 99352 USA

[18] North Carolina State Univ, Dept Populat Hlth & Pathobiol, Raleigh, NC 27695 USA

[19] North Carolina State Univ, Bioinformat Res Ctr, Raleigh, NC 27695 USA

[20] Univ Calif San Diego, Skaggs Sch Pharm & Pharmaceut Sci, Collaborat Mass Spectrometry Innovat Ctr, San Diego, CA 92103 USA

[21] No Arizona Univ, Dept Biol Sci, Flagstaff, AZ 86011 USA

[22] Inst Syst Biol, Seattle, WA USA

[23] Dalhousie Univ, Dept Microbiol & Immunol, Halifax, NS, Canada

[24] Univ British Columbia, Irving K Barber Sch Arts & Sci, Kelowna, BC, Canada

[25] A Watson Armour III Ctr Anim Hlth & Welf, Aquarium Microbiome Project, John G Shedd Aquarium, Chicago, IL USA

[26] Statens Serum Inst, Dept Congenital Disorders, Copenhagen, Denmark

[27] Univ British Columbia Okanagan, Dept Biol, Okanagan, BC, Canada

[28] Univ Colorado, Computat Biosci Program, Anschutz Med Campus, Aurora, CO USA

[29] Univ Colorado, Dept Med, Div Biomed Informat & Personalized Med, Anschutz Med Campus, Aurora, CO USA

[30] Univ Washington, eSci Inst, Seattle, WA 98195 USA

[31] Univ British Columbia, Dept Biol, Irving K Barber Sch Arts & Sci, Kelowna, BC, Canada

[32] Univ British Columbia, Dept Med, Kelowna, BC, Canada

[33] Univ Calif San Diego, Dept Pediat, La Jolla, CA 92093 USA

[34] Michigan State Univ, Ctr Microbial Ecol, E Lansing, MI 48824 USA

[35] Univ Minnesota, Dept Comp Sci & Engn, Minneapolis, MN USA

[36] Stanford Univ, Stat Dept, Palo Alto, CA 94304 USA

[37] Univ Calif San Diego, Dept Comp Sci & Engn, La Jolla, CA 92093 USA

[38] Harvard TH Chan Sch Publ Hlth, Dept Biostat, Boston, MA USA

[39] Broad Inst MIT & Harvard, Cambridge, MA 02142 USA

[40] Australian Natl Univ, Res Sch Biol, Canberra, ACT, Australia

[41] Heinrich Heine Univ Dusseldorf, Dept Pediat Oncol Hematol & Clin Immunol, Dusseldorf, Germany

[42] Univ Calif San Diego, Dept Family Med & Publ Hlth, La Jolla, CA 92093 USA

[43] Univ New South Wales, Sch Sci, Canberra, ACT, Australia

[44] Sookmyung Womens Univ, Coll Pharm, Seoul, South Korea

[45] San Diego State Univ, Dept Biol, San Diego, CA 92182 USA

[46] Univ Minnesota, Biotechnol Inst, St Paul, MN 55108 USA

[47] Univ Calif San Diego, Scripps Inst Oceanog, La Jolla, CA 92093 USA

[48] Univ Calif San Diego, Dept Pediat, La Jolla, CA 92093 USA

[49] Dalhousie Univ, Dept Pharmacol, Halifax, NS, Canada

[50] Howard Hughes Med Inst, Sci Educ, Ashburn, VA USA

来源：

NATURE BIOTECHNOLOGY | 2019年 / 37卷 / 08期

基金：

加拿大自然科学与工程研究理事会; 英国医学研究理事会; 美国国家科学基金会;

关键词：

COMMUNITIES;

D O I：

10.1038/s41587-019-0209-9

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

引用

页码：852 / 857

页数：7

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