Search Results - "Heinken, Almut"

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  1. 1

    Gut microbiota functions: metabolism of nutrients and other food components by Rowland, Ian, Gibson, Glenn, Heinken, Almut, Scott, Karen, Swann, Jonathan, Thiele, Ines, Tuohy, Kieran

    Published in European journal of nutrition (01-02-2018)
    “…The diverse microbial community that inhabits the human gut has an extensive metabolic repertoire that is distinct from, but complements the activity of…”
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    Metabolic modelling reveals broad changes in gut microbial metabolism in inflammatory bowel disease patients with dysbiosis by Heinken, Almut, Hertel, Johannes, Thiele, Ines

    Published in NPJ systems biology and applications (06-05-2021)
    “…Inflammatory bowel diseases, such as Crohn’s Disease, are characterised by an altered blood and faecal metabolome, and changes in gut microbiome composition…”
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  3. 3

    A structured evaluation of genome-scale constraint-based modeling tools for microbial consortia by Scott, Jr, William T, Benito-Vaquerizo, Sara, Zimmermann, Johannes, Bajić, Djordje, Heinken, Almut, Suarez-Diez, Maria, Schaap, Peter J

    Published in PLoS computational biology (14-08-2023)
    “…Harnessing the power of microbial consortia is integral to a diverse range of sectors, from healthcare to biotechnology to environmental remediation. To fully…”
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  4. 4

    Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota by Magnúsdóttir, Stefanía, Heinken, Almut, Kutt, Laura, Ravcheev, Dmitry A, Bauer, Eugen, Noronha, Alberto, Greenhalgh, Kacy, Jäger, Christian, Baginska, Joanna, Wilmes, Paul, Fleming, Ronan M T, Thiele, Ines

    Published in Nature biotechnology (01-01-2017)
    “…A large set of microbial metabolic models (AGORA) could be applied to better understand the functions of the human gut microbiome. Genome-scale metabolic…”
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  5. 5

    Personalized whole‐body models integrate metabolism, physiology, and the gut microbiome by Thiele, Ines, Sahoo, Swagatika, Heinken, Almut, Hertel, Johannes, Heirendt, Laurent, Aurich, Maike K, Fleming, Ronan MT

    Published in Molecular systems biology (01-05-2020)
    “…Comprehensive molecular‐level models of human metabolism have been generated on a cellular level. However, models of whole‐body metabolism have not been…”
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  6. 6

    Systematic prediction of health-relevant human-microbial co-metabolism through a computational framework by Heinken, Almut, Thiele, Ines

    Published in Gut microbes (04-03-2015)
    “…The gut microbiota is well known to affect host metabolic phenotypes. The systemic effects of the gut microbiota on host metabolism are generally evaluated via…”
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    Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease by Heinken, Almut, Ravcheev, Dmitry A, Baldini, Federico, Heirendt, Laurent, Fleming, Ronan M T, Thiele, Ines

    Published in Microbiome (15-05-2019)
    “…The human gut microbiome performs important functions in human health and disease. A classic example for host-gut microbial co-metabolism is host biosynthesis…”
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  8. 8

    Systems biology elucidates the distinctive metabolic niche filled by the human gut microbe Eggerthella lenta by Noecker, Cecilia, Sanchez, Juan, Bisanz, Jordan E, Escalante, Veronica, Alexander, Margaret, Trepka, Kai, Heinken, Almut, Liu, Yuanyuan, Dodd, Dylan, Thiele, Ines, DeFelice, Brian C, Turnbaugh, Peter J

    Published in PLoS biology (19-05-2023)
    “…Human gut bacteria perform diverse metabolic functions with consequences for host health. The prevalent and disease-linked Actinobacterium Eggerthella lenta…”
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  9. 9

    Integration of constraint-based modeling with fecal metabolomics reveals large deleterious effects of Fusobacterium spp. on community butyrate production by Hertel, Johannes, Heinken, Almut, Martinelli, Filippo, Thiele, Ines

    Published in Gut microbes (01-01-2021)
    “…Characterizing the metabolic functions of the gut microbiome in health and disease is pivotal for translating alterations in microbial composition into…”
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  10. 10

    Functional Metabolic Map of Faecalibacterium prausnitzii, a Beneficial Human Gut Microbe by Heinken, Almut, Khan, M. Tanweer, Paglia, Giuseppe, Rodionov, Dmitry A, Harmsen, Hermie J. M, Thiele, Ines

    Published in Journal of bacteriology (01-09-2014)
    “…The human gut microbiota plays a central role in human well-being and disease. In this study, we present an integrated, iterative approach of computational…”
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    Systems-level characterization of a host-microbe metabolic symbiosis in the mammalian gut by Almut Heinken, Ronan M. T. Fleming, Swagatika Sahoo, Ines Thiele

    Published in Gut microbes (01-01-2013)
    “…The human gut microbiota consists of ten times more microorganisms than there are cells in our body, processes otherwise indigestible nutrients, and produces…”
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    Longitudinal flux balance analyses of a patient with episodic colonic inflammation reveals microbiome metabolic dynamics by Basile, Arianna, Heinken, Almut, Hertel, Johannes, Smarr, Larry, Li, Weizhong, Treu, Laura, Valle, Giorgio, Campanaro, Stefano, Thiele, Ines

    Published in Gut microbes (31-12-2023)
    “…We report the first use of constraint-based microbial community modeling on a single individual with episodic inflammation of the gastrointestinal tract, who…”
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  15. 15

    Causal inference on microbiome-metabolome relations in observational host-microbiome data via in silico in vivo association pattern analyses by Hertel, Johannes, Heinken, Almut, Fässler, Daniel, Thiele, Ines

    Published in Cell reports methods (23-10-2023)
    “…Understanding the effects of the microbiome on the host’s metabolism is core to enlightening the role of the microbiome in health and disease. Herein, we…”
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  16. 16

    A systematic review and meta-analysis of proteomic and metabolomic alterations in anaphylaxis reactions by Gallizzi, Adrienne Astrid, Heinken, Almut, Guéant-Rodriguez, Rosa-Maria, Guéant, Jean-Louis, Safar, Ramia

    Published in Frontiers in immunology (07-02-2024)
    “…Anaphylaxis manifests as a severe immediate-type hypersensitivity reaction initiated through the immunological activation of target B-cells by allergens,…”
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  17. 17

    A systems biology approach to drug targets in Pseudomonas aeruginosa biofilm by Sigurdsson, Gunnar, Fleming, Ronan M T, Heinken, Almut, Thiele, Ines

    Published in PloS one (16-04-2012)
    “…Antibiotic resistance is an increasing problem in the health care system and we are in a constant race with evolving bacteria. Biofilm-associated growth is…”
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  18. 18

    A genome-scale metabolic model of a globally disseminated hyperinvasive M1 strain of Streptococcus pyogenes by Hirose, Yujiro, Zielinski, Daniel C, Poudel, Saugat, Rychel, Kevin, Baker, Jonathon L, Toya, Yoshihiro, Yamaguchi, Masaya, Heinken, Almut, Thiele, Ines, Kawabata, Shigetada, Palsson, Bernhard O, Nizet, Victor

    Published in mSystems (17-09-2024)
    “…is responsible for a range of diseases in humans contributing significantly to morbidity and mortality. Among more than 200 serotypes of , serotype M1 strains…”
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    Microbiome Modelling Toolbox 2.0: efficient, tractable modelling of microbiome communities by Heinken, Almut, Thiele, Ines

    Published in Bioinformatics (12-04-2022)
    “…Abstract Motivation Constraint-Based Reconstruction and Analysis (COBRA) is a widely used approach for the interrogation and stratification of microbiome…”
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