Prediction and quantification of bioactive microbiota metabolites in the mouse gut

Tryptophan Catabolism Restricts IFN-γ–Expressing Neutrophils andClostridium difficileImmunopathology

(2014) Mohamad El-Zaatari et al.   JOURNAL OF IMMUNOLOGY

Tryptophan Catabolites from Microbiota Engage Aryl Hydrocarbon Receptor and Balance Mucosal Reactivity via Interleukin-22

(2013) Teresa Zelante et al.   IMMUNITY

A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice

(2013) A Marcobal et al.   ISME Journal

Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation

(2013) Nicholas Arpaia et al.   NATURE

Quantitatively Different, yet Qualitatively Alike: A Meta-Analysis of the Mouse Core Gut Microbiome with a View towards the Human Gut Microbiome

(2013) Lukasz Krych et al.   PLoS One

Commensal Bacteria-Dependent Indole Production Enhances Epithelial Barrier Function in the Colon

(2013) Yosuke Shimada et al.   PLoS One

Understanding the interactions between bacteria in the human gut through metabolic modeling

(2013) Saeed Shoaie et al.   Scientific Reports

Probabilistic Inference of Biochemical Reactions in Microbial Communities from Metagenomic Sequences

(2013) Dazhi Jiao et al.   PLoS Computational Biology

The aryl hydrocarbon receptor in inflammatory bowel disease

(2012) Ivan Monteleone et al.   CURRENT OPINION IN GASTROENTEROLOGY

SEED Servers: High-Performance Access to the SEED Genomes, Annotations, and Metabolic Models

(2012) Ramy K. Aziz et al.   PLoS One

Intestinal Inflammation Targets Cancer-Inducing Activity of the Microbiota

(2012) J. C. Arthur et al.   SCIENCE

Gut microbiota and diabetes: from pathogenesis to therapeutic perspective

(2011) Rémy Burcelin et al.   ACTA DIABETOLOGICA

Automated workflows for accurate mass-based putative metabolite identification in LC/MS-derived metabolomic datasets

(2011) M. Brown et al.   BIOINFORMATICS

Exogenous Stimuli Maintain Intraepithelial Lymphocytes via Aryl Hydrocarbon Receptor Activation

(2011) Ying Li et al.   CELL

Aryl Hydrocarbon Receptor-Induced Signals Up-regulate IL-22 Production and Inhibit Inflammation in the Gastrointestinal Tract

(2011) Ivan Monteleone et al.   GASTROENTEROLOGY

The Commensal Microbiota and Enteropathogens in the Pathogenesis of Inflammatory Bowel Diseases

(2011) Benoit Chassaing et al.   GASTROENTEROLOGY

The Aryl Hydrocarbon Receptor Regulates Gut Immunity through Modulation of Innate Lymphoid Cells

(2011) Ju Qiu et al.   IMMUNITY

The Footprints of Gut Microbial–Mammalian Co-Metabolism

(2011) Xiaojiao Zheng et al.   JOURNAL OF PROTEOME RESEARCH

Probabilistic pathway construction

(2011) Mona Yousofshahi et al.   METABOLIC ENGINEERING

Bifidobacteria can protect from enteropathogenic infection through production of acetate

(2011) Shinji Fukuda et al.   NATURE

Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease

(2011) S. Greenblum et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

External influences on the immune system via activation of the aryl hydrocarbon receptor

(2011) Brigitta Stockinger et al.   SEMINARS IN IMMUNOLOGY

An Interaction between Kynurenine and the Aryl Hydrocarbon Receptor Can Generate Regulatory T Cells

(2010) J. D. Mezrich et al.   JOURNAL OF IMMUNOLOGY

Dietary Modulation of Gut Functional Ecology Studied by Fecal Metabonomics

(2010) Francois-Pierre J. Martin et al.   JOURNAL OF PROTEOME RESEARCH

Lentiviral microarrays for real-time monitoring of gene expression dynamics

(2010) Jun Tian et al.   LAB ON A CHIP

Evaluation of extraction processes for intracellular metabolite profiling of mammalian cells: matching extraction approaches to cell type and metabolite targets

(2010) Christopher A. Sellick et al.   Metabolomics

HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology

(2010) Christoph Gille et al.   Molecular Systems Biology

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Metabolic fate of polyphenols in the human superorganism

(2010) J. van Duynhoven et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The core gut microbiome, energy balance and obesity

(2009) Peter J. Turnbaugh et al.   JOURNAL OF PHYSIOLOGY-LONDON

Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites

(2009) W. R. Wikoff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The bacterial signal indole increases epithelial-cell tight-junction resistance and attenuates indicators of inflammation

(2009) T. Bansal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The conservation and evolutionary modularity of metabolism

(2009) José M Peregrín-Alvarez et al.   GENOME BIOLOGY

Analytical strategies for LC–MS-based targeted metabolomics

(2008) Wenyun Lu et al.   JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES

Induction of paraoxonase 1 and apolipoprotein A-I gene expression by aspirin

(2008) Priscilla Jaichander et al.   JOURNAL OF LIPID RESEARCH

Functional and comparative metagenomic analysis of bile salt hydrolase activity in the human gut microbiome

(2008) B. V. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA