A conserved Bacteroidetes antigen induces anti-inflammatory intestinal T lymphocytes

Stepwise chromatin and transcriptional acquisition of an intraepithelial lymphocyte program

(2021) Mariya London et al.   NATURE IMMUNOLOGY

Essential role of a ThPOK autoregulatory loop in the maintenance of mature CD4+ T cell identity and function

(2021) Jayati Basu et al.   NATURE IMMUNOLOGY

Microbial modulation of intestinal T helper cell responses and implications for disease and therapy

(2020) Markus B. Geuking et al.   Mucosal Immunology

T Cell Receptor Is Required for Differentiation, but Not Maintenance, of Intestinal CD4+ Intraepithelial Lymphocytes

(2020) Angelina M. Bilate et al.   IMMUNITY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Akkermansia muciniphila induces intestinal adaptive immune responses during homeostasis

(2019) Eduard Ansaldo et al.   SCIENCE

c-MAF-dependent regulatory T cells mediate immunological tolerance to a gut pathobiont

(2018) Mo Xu et al.   NATURE

Non-canonicaly recruited TCRαβCD8αα IELs recognize microbial antigens

(2018) Lukasz Wojciech et al.   Scientific Reports

Homeostatic Immunity and the Microbiota

(2017) Yasmine Belkaid et al.   IMMUNITY

A real-time PCR assay for accurate quantification of the individual members of the Altered Schaedler Flora microbiota in gnotobiotic mice

(2017) João Carlos Gomes-Neto et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Regulatory T cells promote myelin regeneration in the central nervous system

(2017) Yvonne Dombrowski et al.   NATURE NEUROSCIENCE

Easi-CRISPR for creating knock-in and conditional knockout mouse models using long ssDNA donors

(2017) Hiromi Miura et al.   Nature Protocols

Lactobacillus reuteriinduces gut intraepithelial CD4+CD8αα+T cells

(2017) Luisa Cervantes-Barragan et al.   SCIENCE

An insider's perspective: Bacteroides as a window into the microbiome

(2017) Aaron G. Wexler et al.   Nature Microbiology

Counterselection employing mutated pheS for markerless genetic deletion in Bacteroides species

(2016) Yasuhiro Kino et al.   ANAEROBE

Tissue adaptation of regulatory and intraepithelial CD4+ T cells controls gut inflammation

(2016) T. Sujino et al.   SCIENCE

Rapid and Efficient Generation of Regulatory T Cells to Commensal Antigens in the Periphery

(2016) Katherine Nutsch et al.   Cell Reports

Individual intestinal symbionts induce a distinct population of ROR + regulatory T cells

(2015) E. Sefik et al.   SCIENCE

Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota

(2015) Mark Mimee et al.   Cell Systems

Rapid Flow-Based Peptide Synthesis

(2014) Mark D. Simon et al.   CHEMBIOCHEM

Transcription Factor T-bet Regulates Intraepithelial Lymphocyte Functional Maturation

(2014) Bernardo S. Reis et al.   IMMUNITY

Focused specificity of intestinal TH17 cells towards commensal bacterial antigens

(2014) Yi Yang et al.   NATURE

Distribution-Based Clustering: Using Ecology To Refine the Operational Taxonomic Unit

(2013) Sarah P. Preheim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

CD4+T-cell subsets in intestinal inflammation

(2013) Matthew Shale et al.   IMMUNOLOGICAL REVIEWS

Transcriptional reprogramming of mature CD4+ helper T cells generates distinct MHC class II–restricted cytotoxic T lymphocytes

(2013) Daniel Mucida et al.   NATURE IMMUNOLOGY

Mutual expression of the transcription factors Runx3 and ThPOK regulates intestinal CD4+ T cell immunity

(2013) Bernardo Sgarbi Reis et al.   NATURE IMMUNOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Induced CD4+Foxp3+ Regulatory T Cells in Immune Tolerance

(2012) Angelina M. Bilate et al.   Annual Review of Immunology

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Deletion of Foxp3+ regulatory T cells in genetically targeted mice supports development of intestinal inflammation

(2012) Franziska Boehm et al.   BMC GASTROENTEROLOGY

Intestinal Commensal Microbes as Immune Modulators

(2012) Ivaylo I. Ivanov et al.   Cell Host & Microbe

Impairment of podocyte function by diphtheria toxin—a new reversible proteinuria model in mice

(2012) Andreas Goldwich et al.   LABORATORY INVESTIGATION

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Fecal Lipocalin 2, a Sensitive and Broadly Dynamic Non-Invasive Biomarker for Intestinal Inflammation

(2012) Benoit Chassaing et al.   PLoS One

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Peripheral education of the immune system by colonic commensal microbiota

(2011) Stephanie K. Lathrop et al.   NATURE

Quantitative impact of thymic selection on Foxp3+ and Foxp3- subsets of self-peptide/MHC class II-specific CD4+ T cells

(2011) J. J. Moon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

TL and CD8αα: Enigmatic partners in mucosal immunity

(2010) Danyvid Olivares-Villagómez et al.   IMMUNOLOGY LETTERS

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

Interleukin-23 Restrains Regulatory T Cell Activity to Drive T Cell-Dependent Colitis

(2008) Ana Izcue et al.   IMMUNITY

Thymus leukemia antigen controls intraepithelial lymphocyte function and inflammatory bowel disease

(2008) D. Olivares-Villagomez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA