Human gut bacterial metabolism drives Th17 activation and colitis

Congruent microbiome signatures in fibrosis-prone autoimmune diseases: IgG4-related disease and systemic sclerosis

(2021) Damian R. Plichta et al.   Genome Medicine

Compositional and genetic alterations in Graves’ disease gut microbiome reveal specific diagnostic biomarkers

(2021) Qiyun Zhu et al.   ISME Journal

MetaboAnalyst 5.0: narrowing the gap between raw spectra and functional insights

(2021) Zhiqiang Pang et al.   NUCLEIC ACIDS RESEARCH

Ketogenic Diets Alter the Gut Microbiome Resulting in Decreased Intestinal Th17 Cells

(2020) Qi Yan Ang et al.   CELL

A Genomic Toolkit for the Mechanistic Dissection of Intractable Human Gut Bacteria

(2020) Jordan E. Bisanz et al.   Cell Host & Microbe

Deconstructing Mechanisms of Diet-Microbiome-Immune Interactions

(2020) Margaret Alexander et al.   IMMUNITY

Feature-based molecular networking in the GNPS analysis environment

(2020) Louis-Félix Nothias et al.   NATURE METHODS

Defined microbiota transplant restores Th17/RORγt+regulatory T cell balance in mice colonized with inflammatory bowel disease microbiotas

(2020) Graham J. Britton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbiotas from Humans with Inflammatory Bowel Disease Alter the Balance of Gut Th17 and RORγt+ Regulatory T Cells and Exacerbate Colitis in Mice

(2019) Graham J. Britton et al.   IMMUNITY

Dietary Arginine Regulates Severity of Experimental Colitis and Affects the Colonic Microbiome

(2019) Kshipra Singh et al.   Frontiers in Cellular and Infection Microbiology

Commensal Candida albicans Positively Calibrates Systemic Th17 Immunological Responses

(2019) Tzu-Yu Shao et al.   Cell Host & Microbe

Human Anti-fungal Th17 Immunity and Pathology Rely on Cross-Reactivity against Candida albicans

(2019) Petra Bacher et al.   CELL

Bach2 Negatively Regulates T Follicular Helper Cell Differentiation and Is Critical for CD4+ T Cell Memory

(2019) Jianlin Geng et al.   JOURNAL OF IMMUNOLOGY

Fecal Microbiota Transplantation in Pouchitis: Clinical, Endoscopic, Histologic, and Microbiota Results from a Pilot Study

(2019) Daniel Selvig et al.   DIGESTIVE DISEASES AND SCIENCES

Cyclooxygenase-1 Regulates the Development of Follicular Th Cells via Prostaglandin E2

(2019) Ting Liu et al.   JOURNAL OF IMMUNOLOGY

MolNetEnhancer: Enhanced Molecular Networks by Integrating Metabolome Mining and Annotation Tools

(2019) Madeleine Ernst et al.   Metabolites

Correlation of diet, microbiota and metabolite networks in inflammatory bowel disease

(2019) Yi Jie Weng et al.   Journal of Digestive Diseases

Vedolizumab versus Adalimumab for Moderate-to-Severe Ulcerative Colitis

(2019) Bruce E. Sands et al.   NEW ENGLAND JOURNAL OF MEDICINE

Propagating annotations of molecular networks using in silico fragmentation

(2018) Ricardo R. da Silva et al.   PLoS Computational Biology

Discovery and characterization of a prevalent human gut bacterial enzyme sufficient for the inactivation of a family of plant toxins

(2018) Nitzan Koppel et al.   eLife

Dereplication of microbial metabolites through database search of mass spectra

(2018) Hosein Mohimani et al.   Nature Communications

The Host Microbiota Contributes to Early Protection Against Lung Colonization by Mycobacterium tuberculosis

(2018) Alexia Dumas et al.   Frontiers in Immunology

Gut microbiome structure and metabolic activity in inflammatory bowel disease

(2018) Eric A. Franzosa et al.   Nature Microbiology

Gut bacteria from multiple sclerosis patients modulate human T cells and exacerbate symptoms in mouse models

(2017) Egle Cekanaviciute et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Silencing of TGF-β1 in tumor cells impacts MMP-9 in tumor microenvironment

(2017) Lakisha D. Moore-Smith et al.   Scientific Reports

Microbiome Datasets Are Compositional: And This Is Not Optional

(2017) Gregory B. Gloor et al.   Frontiers in Microbiology

An integrated metagenomics pipeline for strain profiling reveals novel patterns of bacterial transmission and biogeography

(2016) Stephen Nayfach et al.   GENOME RESEARCH

L-Arginine Availability and Metabolism Is Altered in Ulcerative Colitis

(2016) Lori A. Coburn et al.   INFLAMMATORY BOWEL DISEASES

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

(2016) Mingxun Wang et al.   NATURE BIOTECHNOLOGY

Oral Administration of p-Hydroxycinnamic Acid Attenuates Atopic Dermatitis by Downregulating Th1 and Th2 Cytokine Production and Keratinocyte Activation

(2016) Hyun-Su Lee et al.   PLoS One

Identifying species of symbiont bacteria from the human gut that, alone, can induce intestinal Th17 cells in mice

(2016) Tze Guan Tan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inhibition of RORγT Skews TCRα Gene Rearrangement and Limits T Cell Repertoire Diversity

(2016) Yanxia Guo et al.   Cell Reports

Elevated IL-23R Expression and Foxp3+Rorgt+ Cells in Intestinal Mucosa During Acute and Chronic Colitis

(2016) Jiayin Yang et al.   MEDICAL SCIENCE MONITOR

Dysbiosis Contributes to Arthritis Development via Activation of Autoreactive T Cells in the Intestine

(2016) Yuichi Maeda et al.   Arthritis & Rheumatology

Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells

(2015) Koji Atarashi et al.   CELL

MyD88 Signaling in T Cells Directs IgA-Mediated Control of the Microbiota to Promote Health

(2015) Jason L. Kubinak et al.   Cell Host & Microbe

Microbiota and Autoimmunity: Exploring New Avenues

(2015) Leonid A. Yurkovetskiy et al.   Cell Host & Microbe

The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment

(2015) Xuan Zhang et al.   NATURE MEDICINE

High speed BLASTN: an accelerated MegaBLAST search tool

(2015) Ying Chen et al.   NUCLEIC ACIDS RESEARCH

Induction and carbon catabolite repression of phenol degradation genes in Rhodococcus erythropolis and Rhodococcus jostii

(2014) Juraj Szőköl et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Role of the Microbiota in Immunity and Inflammation

(2014) Yasmine Belkaid et al.   CELL

miR-155 Promotes T Follicular Helper Cell Accumulation during Chronic, Low-Grade Inflammation

(2014) Ruozhen Hu et al.   IMMUNITY

Segmented Filamentous Bacteria Antigens Presented by Intestinal Dendritic Cells Drive Mucosal Th17 Cell Differentiation

(2014) Yoshiyuki Goto et al.   IMMUNITY

Clinical and Microbiological Characteristics of Eggerthella lenta Bacteremia

(2014) B. J. Gardiner et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Serum Amino Acids Profile and the Beneficial Effects of L-Arginine or L-Glutamine Supplementation in Dextran Sulfate Sodium Colitis

(2014) Wenkai Ren et al.   PLoS One

Unifying the analysis of high-throughput sequencing datasets: characterizing RNA-seq, 16S rRNA gene sequencing and selective growth experiments by compositional data analysis

(2014) Andrew D Fernandes et al.   Microbiome

ANOVA-Like Differential Expression (ALDEx) Analysis for Mixed Population RNA-Seq

(2013) Andrew D. Fernandes et al.   PLoS One

Predicting and Manipulating Cardiac Drug Inactivation by the Human Gut Bacterium Eggerthella lenta

(2013) H. J. Haiser et al.   SCIENCE

A Validated Regulatory Network for Th17 Cell Specification

(2012) Maria Ciofani et al.   CELL

Small molecule inhibitors of RORγt: Targeting Th17 cells and other applications

(2012) Jun R. Huh et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Fyn Promotes Th17 Differentiation by Regulating the Kinetics of ROR t and Foxp3 Expression

(2012) A. Ueda et al.   JOURNAL OF IMMUNOLOGY

L-arginine Supplementation Improves Responses to Injury and Inflammation in Dextran Sulfate Sodium Colitis

(2012) Lori A. Coburn et al.   PLoS One

Dietary Lactoferrin Alleviates Age-Related Lacrimal Gland Dysfunction in Mice

(2012) Motoko Kawashima et al.   PLoS One

Structural Basis of Digoxin That Antagonizes RORγt Receptor Activity and Suppresses Th17 Cell Differentiation and Interleukin (IL)-17 Production

(2011) Saori Fujita-Sato et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Digoxin and its derivatives suppress TH17 cell differentiation by antagonizing RORγt activity

(2011) Jun R. Huh et al.   NATURE

The Toll-Like Receptor 2 Pathway Establishes Colonization by a Commensal of the Human Microbiota

(2011) J. L. Round et al.   SCIENCE

2010 Rheumatoid arthritis classification criteria: An American College of Rheumatology/European League Against Rheumatism collaborative initiative

(2010) Daniel Aletaha et al.   ARTHRITIS AND RHEUMATISM

MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data

(2010) Tomáš Pluskal et al.   BMC BIOINFORMATICS

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Proinflammatory T-cell responses to gut microbiota promote experimental autoimmune encephalomyelitis

(2010) Y. K. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species

(2010) K. Atarashi et al.   SCIENCE

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

12/15-Lipoxygenase-Dependent Myeloid Production of Interleukin-12 Is Essential for Resistance to Chronic Toxoplasmosis

(2009) M. K. Middleton et al.   INFECTION AND IMMUNITY