Healthy infants harbor intestinal bacteria that protect against food allergy

The Influence of the Microbiome on Allergic Sensitization to Food

(2017) Catherine H. Plunkett et al.   JOURNAL OF IMMUNOLOGY

lmerTest Package: Tests in Linear Mixed Effects Models

(2017) Alexandra Kuznetsova et al.   Journal of Statistical Software

Critical Issues in Food Allergy: A National Academies Consensus Report

(2017) Scott H. Sicherer et al.   PEDIATRICS

Microbiota-activated PPAR-γ signaling inhibits dysbiotic Enterobacteriaceae expansion

(2017) Mariana X. Byndloss et al.   SCIENCE

Neonatal acquisition of Clostridia species protects against colonization by bacterial pathogens

(2017) Yun-Gi Kim et al.   SCIENCE

Discrete False-Discovery Rate Improves Identification of Differentially Abundant Microbes

(2017) Lingjing Jiang et al.   mSystems

Food Allergy: Our Evolving Understanding of Its Pathogenesis, Prevention, and Treatment

(2016) Onyinye I. Iweala et al.   CURRENT ALLERGY AND ASTHMA REPORTS

The Microbiome, Timing, and Barrier Function in the Context of Allergic Disease

(2016) Duane R. Wesemann et al.   IMMUNITY

Early-life gut microbiome composition and milk allergy resolution

(2016) Supinda Bunyavanich et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The microbiota in adaptive immune homeostasis and disease

(2016) Kenya Honda et al.   NATURE

Development of the gut microbiota and mucosal IgA responses in twins and gnotobiotic mice

(2016) Joseph D. Planer et al.   NATURE

The microbiome and innate immunity

(2016) Christoph A. Thaiss et al.   NATURE

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Gut bacteria that prevent growth impairments transmitted by microbiota from malnourished children

(2016) L. V. Blanton et al.   SCIENCE

Separation of intact intestinal epithelium from mesenchyme

(2016) Ali Moussavi Nik et al.   BIOTECHNIQUES

Indigenous Bacteria from the Gut Microbiota Regulate Host Serotonin Biosynthesis

(2015) Jessica M. Yano et al.   CELL

Lactobacillus rhamnosus GG-supplemented formula expands butyrate-producing bacterial strains in food allergic infants

(2015) Roberto Berni Canani et al.   ISME Journal

Metabolic and Tissue-Specific Regulation of Acyl-CoA Metabolism

(2015) Jessica M. Ellis et al.   PLoS One

The infant microbiome development: mom matters

(2015) Noel T. Mueller et al.   TRENDS IN MOLECULAR MEDICINE

Diversity of Intestinal Clostridium coccoides Group in the Japanese Population, as Demonstrated by Reverse Transcription-Quantitative PCR

(2015) Takashi Kurakawa et al.   PLoS One

Commensal bacteria protect against food allergen sensitization

(2014) A. T. Stefka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

Intestinal Microbial Diversity during Early-Life Colonization Shapes Long-Term IgE Levels

(2013) Julia Cahenzli et al.   Cell Host & Microbe

Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells

(2013) Yukihiro Furusawa et al.   NATURE

Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota

(2013) Koji Atarashi et al.   NATURE

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

A microbiota signature associated with experimental food allergy promotes allergic sensitization and anaphylaxis

(2012) Magali Noval Rivas et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Oral tolerance to food protein

(2012) O Pabst et al.   Mucosal Immunology

Lymphotoxin regulates commensal responses to enable diet-induced obesity

(2012) Vaibhav Upadhyay et al.   NATURE IMMUNOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Microbial Regulation of Glucose Metabolism and Cell-Cycle Progression in Mammalian Colonocytes

(2012) Dallas R. Donohoe et al.   PLoS One

Cytosolic Malic Enzyme 1 (ME1) Mediates High Fat Diet-Induced Adiposity, Endocrine Profile, and Gastrointestinal Tract Proliferation-Associated Biomarkers in Male Mice

(2012) Ahmed Al-Dwairi et al.   PLoS One

Wnt5a Potentiates TGF-  Signaling to Promote Colonic Crypt Regeneration After Tissue Injury

(2012) H. Miyoshi et al.   SCIENCE

The role of low-level lactate production in airway inflammation in asthma

(2011) Marina Ostroukhova et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

The Microbiome and Butyrate Regulate Energy Metabolism and Autophagy in the Mammalian Colon

(2011) Dallas R. Donohoe et al.   Cell Metabolism

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns

(2010) M. G. Dominguez-Bello 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

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Warburg effect revisited: an epigenetic link between glycolysis and gastric carcinogenesis

(2009) X Liu et al.   ONCOGENE