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Multi-omics of the ...
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Lloyd-Price, Jason
(author)
Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases
- Article/chapterEnglish2019
Publisher, publication year, extent ...
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2019-05-29
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Nature Publishing Group,2019
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printrdacarrier
Numbers
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LIBRIS-ID:oai:DiVA.org:umu-160609
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https://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-160609URI
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https://doi.org/10.1038/s41586-019-1237-9DOI
Supplementary language notes
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Language:English
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Summary in:English
Part of subdatabase
Classification
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Subject category:ref swepub-contenttype
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Subject category:art swepub-publicationtype
Notes
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Inflammatory bowel diseases, which include Crohn's disease and ulcerative colitis, affect several million individuals worldwide. Crohn's disease and ulcerative colitis are complex diseases that are heterogeneous at the clinical, immunological, molecular, genetic, and microbial levels. Individual contributing factors have been the focus of extensive research. As part of the Integrative Human Microbiome Project (HMP2 or iHMP), we followed 132 subjects for one year each to generate integrated longitudinal molecular profiles of host and microbial activity during disease (up to 24 time points each; in total 2,965 stool, biopsy, and blood specimens). Here we present the results, which provide a comprehensive view of functional dysbiosis in the gut microbiome during inflammatory bowel disease activity. We demonstrate a characteristic increase in facultative anaerobes at the expense of obligate anaerobes, as well as molecular disruptions in microbial transcription (for example, among clostridia), metabolite pools (acylcarnitines, bile acids, and short-chain fatty acids), and levels of antibodies in host serum. Periods of disease activity were also marked by increases in temporal variability, with characteristic taxonomic, functional, and biochemical shifts. Finally, integrative analysis identified microbial, biochemical, and host factors central to this dysregulation. The study's infrastructure resources, results, and data, which are available through the Inflammatory Bowel Disease Multi'omics Database (http://ibdmdb.org), provide the most comprehensive description to date of host and microbial activities in inflammatory bowel diseases.
Subject headings and genre
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Arze, Cesar
(author)
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Ananthakrishnan, Ashwin N.
(author)
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Schirmer, Melanie
(author)
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Avila-Pacheco, Julian
(author)
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Poon, Tiffany W.
(author)
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Andrews, Elizabeth
(author)
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Ajami, Nadim J.
(author)
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Bonham, Kevin S.
(author)
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Brislawn, Colin J.
(author)
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Casero, David
(author)
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Courtney, Holly
(author)
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Gonzalez, Antonio
(author)
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Graeber, Thomas G.
(author)
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Hall, A. Brantley
(author)
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Lake, Kathleen
(author)
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Landers, Carol J.
(author)
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Mallick, Himel
(author)
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Plichta, Damian R.
(author)
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Prasad, Mahadev
(author)
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Rahnavard, Gholamali
(author)
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Sauk, Jenny
(author)
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Shungin, DmitryUmeå universitet,Institutionen för odontologi,Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA(Swepub:umu)dmsh0003
(author)
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Vazquez-Baeza, Yoshiki
(author)
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White, Richard A., III
(author)
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Braun, Jonathan
(author)
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Denson, Lee A.
(author)
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Jansson, Janet K.
(author)
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Knight, Rob
(author)
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Kugathasan, Subra
(author)
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McGovern, Dermot P. B.
(author)
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Petrosino, Joseph F.
(author)
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Stappenbeck, Thaddeus S.
(author)
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Winter, Harland S.
(author)
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Clish, Clary B.
(author)
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Franzosa, Eric A.
(author)
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Vlamakis, Hera
(author)
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Xavier, Ramnik J.
(author)
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Huttenhower, Curtis
(author)
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Bishai, Jason
(author)
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Bullock, Kevin
(author)
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Deik, Amy
(author)
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Dennis, Courtney
(author)
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Kaplan, Jess L.
(author)
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Khalili, Hamed
(author)
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McIver, Lauren J.
(author)
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Moran, Christopher J.
(author)
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Nguyen, Long
(author)
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Pierce, Kerry A.
(author)
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Schwager, Randall
(author)
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Sirota-Madi, Alexandra
(author)
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Stevens, Betsy W.
(author)
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Tan, William
(author)
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ten Hoeve, Johanna J.
(author)
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Weingart, George
(author)
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Wilson, Robin G.
(author)
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Yajnik, Vijay
(author)
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Umeå universitetInstitutionen för odontologi
(creator_code:org_t)
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In:Nature: Nature Publishing Group569:7758, s. 655-6610028-08361476-4687
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Lloyd-Price, Jas ...
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Arze, Cesar
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Ananthakrishnan, ...
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Schirmer, Melani ...
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Avila-Pacheco, J ...
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Poon, Tiffany W.
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Andrews, Elizabe ...
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Ajami, Nadim J.
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Bonham, Kevin S.
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Brislawn, Colin ...
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Casero, David
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Courtney, Holly
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Gonzalez, Antoni ...
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Graeber, Thomas ...
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Hall, A. Brantle ...
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Lake, Kathleen
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Landers, Carol J ...
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Mallick, Himel
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Plichta, Damian ...
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Prasad, Mahadev
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Rahnavard, Ghola ...
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Sauk, Jenny
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Shungin, Dmitry
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Vazquez-Baeza, Y ...
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White, Richard A ...
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Braun, Jonathan
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Denson, Lee A.
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Jansson, Janet K ...
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Knight, Rob
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Kugathasan, Subr ...
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McGovern, Dermot ...
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Petrosino, Josep ...
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Stappenbeck, Tha ...
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Winter, Harland ...
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Clish, Clary B.
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Franzosa, Eric A ...
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Vlamakis, Hera
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Xavier, Ramnik J ...
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Huttenhower, Cur ...
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Bishai, Jason
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Bullock, Kevin
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Deik, Amy
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Dennis, Courtney
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Kaplan, Jess L.
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Khalili, Hamed
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McIver, Lauren J ...
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Moran, Christoph ...
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Nguyen, Long
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Pierce, Kerry A.
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Schwager, Randal ...
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Sirota-Madi, Ale ...
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Stevens, Betsy W ...
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Tan, William
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ten Hoeve, Johan ...
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Weingart, George
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Wilson, Robin G.
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Yajnik, Vijay
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