Himel Mallick:
ORCID: https://orcid.org/0000-0003-4956-2429
Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole:
MethodologyRole: SoftwareRole: ValidationRole: VisualizationRole: Writing – original
draftRole: Writing – review & editing
Ali Rahnavard:
ORCID: https://orcid.org/0000-0002-9710-0248
Role: InvestigationRole: SoftwareRole: ValidationRole: VisualizationRole: Writing
– original draftRole: Writing – review & editing
Lauren J. McIver:
ORCID: https://orcid.org/0000-0002-2199-4310
Role: InvestigationRole: SoftwareRole: ValidationRole: VisualizationRole: Writing
– original draftRole: Writing – review & editing
Siyuan Ma:
ORCID: https://orcid.org/0000-0003-2313-6448
Role: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole:
ValidationRole: Writing – original draftRole: Writing – review & editing
Yancong Zhang:
ORCID: https://orcid.org/0000-0002-2768-2975
Role: Data curationRole: Formal analysisRole: InvestigationRole: Writing – original
draftRole: Writing – review & editing
Long H. Nguyen:
ORCID: https://orcid.org/0000-0002-5436-4219
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Timothy L. Tickle:
ORCID: https://orcid.org/0000-0002-6592-6272
Role: ConceptualizationRole: InvestigationRole: MethodologyRole: ValidationRole: Writing
– original draftRole: Writing – review & editing
George Weingart: Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Boyu Ren:
ORCID: https://orcid.org/0000-0002-5300-1184
Role: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole:
ValidationRole: Writing – original draftRole: Writing – review & editing
Emma H. Schwager:
ORCID: https://orcid.org/0000-0002-7385-8994
Role: InvestigationRole: ValidationRole: Writing – original draftRole: Writing – review
& editing
Suvo Chatterjee: Role: InvestigationRole: ValidationRole: Writing – original draftRole: Writing – review
& editing
Kelsey N. Thompson:
ORCID: https://orcid.org/0000-0002-9437-9722
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Jeremy E. Wilkinson:
ORCID: https://orcid.org/0000-0002-8024-5600
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Ayshwarya Subramanian:
ORCID: https://orcid.org/0000-0002-4134-7612
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Yiren Lu: Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Levi Waldron:
ORCID: https://orcid.org/0000-0003-2725-0694
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Joseph N. Paulson:
ORCID: https://orcid.org/0000-0001-8221-7139
Role: InvestigationRole: Writing – original draftRole: Writing – review & editing
Eric A. Franzosa:
ORCID: https://orcid.org/0000-0002-8798-7068
Role: InvestigationRole: SupervisionRole: Writing – original draftRole: Writing –
review & editing
Hector Corrada Bravo: Role: InvestigationRole: ResourcesRole: SupervisionRole: Writing – original draftRole:
Writing – review & editing
Curtis Huttenhower:
ORCID: https://orcid.org/0000-0002-1110-0096
Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: Project administrationRole:
ResourcesRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
Luis Pedro Coelho: Role: Editor
Journal ID (nlm-ta): PLoS Comput Biol
Journal ID (iso-abbrev): PLoS Comput Biol
Journal ID (publisher-id): plos
Title:
PLoS Computational Biology
Publisher:
Public Library of Science
(San Francisco, CA USA
)
ISSN
(Print):
1553-734X
ISSN
(Electronic):
1553-7358
Publication date
(Electronic):
16
November
2021
Publication date Collection:
November
2021
Volume: 17
Issue: 11
Electronic Location Identifier: e1009442
Affiliations
[1
]
Biostatistics Department, Harvard T. H. Chan School of Public Health, Boston, Massachusetts,
United States of America
[2
]
The Broad Institute, Cambridge, Massachusetts, United States of America
[3
]
Computational Biology Institute, Department of Biostatistics and Bioinformatics, Milken
Institute School of Public Health, George Washington University, Washington DC, United
States of America
[4
]
Clinical and Translational Epidemiology Unit, Massachusetts General Hospital and Harvard
Medical School, Boston, Massachusetts, United States of America
[5
]
Division of Gastroenterology, Massachusetts General Hospital and Harvard Medical School,
Boston, Massachusetts, United States of America
[6
]
Epidemiology Branch, Division of Intramural Population Health Research, Eunice Kennedy
Shriver National Institute of Child Health and Human Development, National Institutes
of Health, Bethesda, Maryland, United States of America
[7
]
Department of Epidemiology and Biostatistics, CUNY School of Public Health, New York
City, New York, United States of America
[8
]
Department of Biostatistics, Product Development, Genentech, Inc., South San Francisco,
California, United States of America
[9
]
Center for Bioinformatics and Computational Biology, University of Maryland, College
Park, Maryland, United States of America
Author notes
I have read the journal’s policy and the authors of this manuscript have the following
competing interests: CH is on the Scientific Advisory Board for Seres Therapeutics
and Empress Therapeutics. The remaining authors have declared that no competing interests
exist. Author Yiren Lu was unable to confirm their authorship contributions. On their
behalf, the corresponding author has reported their contributions to the best of their
knowledge.
Author information
Article
Publisher ID:
PCOMPBIOL-D-21-01441
DOI: 10.1371/journal.pcbi.1009442
PMC ID: 8714082
PubMed ID: 34784344
SO-VID: a0a90013-0cb2-493c-acaa-9bdbd9bc8081
License:
This is an open access article, free of all copyright, and may be freely reproduced,
distributed, transmitted, modified, built upon, or otherwise used by anyone for any
lawful purpose. The work is made available under the
Creative Commons CC0 public domain dedication.
Funded by:
US National Science Foundation, Division of Environmental Biology
Award ID: DEB 2028280
Award Recipient
:
ORCID: https://orcid.org/0000-0002-9710-0248
Ali Rahnavard
Funded by:
funder-id http://dx.doi.org/10.13039/100000060, national institute of allergy and infectious diseases;
Award ID: U19AI110820
Award Recipient
:
ORCID: https://orcid.org/0000-0002-1110-0096
Curtis Huttenhower
Funded by:
funder-id http://dx.doi.org/10.13039/100000051, national human genome research institute;
Award ID: R01HG005220
Award Recipient
:
ORCID: https://orcid.org/0000-0002-1110-0096
Curtis Huttenhower
Funded by:
funder-id http://dx.doi.org/10.13039/100000062, national institute of diabetes and digestive and kidney diseases;
Award ID: R24DK110499
Award Recipient
:
ORCID: https://orcid.org/0000-0002-1110-0096
Curtis Huttenhower
Funded by:
funder-id http://dx.doi.org/10.13039/100000062, national institute of diabetes and digestive and kidney diseases;
Award ID: U54DK102557
Award Recipient
:
ORCID: https://orcid.org/0000-0002-1110-0096
Curtis Huttenhower
This work was funded in part by US National Science Foundation grant DEB-2028280 (AR),
US National Institutes of Health grants U19AI110820 (CH, to Owen White), R01HG005220
(CH, to Rafael Irizarry), and R24DK110499 and U54DK102557 (CH). The funders had no
role in study design, data collection and analysis, decision to publish, or preparation
of the manuscript.
Subject:
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Computer and Information Sciences
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Data Management
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Metadata
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Biology and Life Sciences
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Microbiome
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Microbial Genomics
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Microbiome
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Research and Analysis Methods
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Simulation and Modeling
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Genetics
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Metagenomics
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Engineering and Technology
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Statistical Models
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