Ulcerative colitis is characterized by a plasmablast-skewed humoral response associated with disease activity

Identification of an Anti–Integrin αvβ6 Autoantibody in Patients With Ulcerative Colitis

(2021) Takeshi Kuwada et al.   GASTROENTEROLOGY

Human Microbiota Flagellins Drive Adaptive Immune Responses in Crohn’s Disease

(2021) Katie L. Alexander et al.   GASTROENTEROLOGY

Differential abundance testing on single-cell data using k-nearest neighbor graphs

(2021) Emma Dann et al.   NATURE BIOTECHNOLOGY

Distinct microbial and immune niches of the human colon

(2020) Kylie R. James et al.   NATURE IMMUNOLOGY

The Imbalance of Circulating Follicular Helper T Cells and Follicular Regulatory T Cells Is Associated With Disease Activity in Patients With Ulcerative Colitis

(2020) Yan Long et al.   Frontiers in Immunology

High microbiota reactivity of adult human intestinal IgA requires somatic mutations

(2020) Johanna Kabbert et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Heterogeneity and clonal relationships of adaptive immune cells in ulcerative colitis revealed by single-cell analyses

(2020) Brigid S. Boland et al.   Science Immunology

Targeting B cells for inflammatory bowel disease treatment: back to the future

(2020) Tomas Castro-Dopico et al.   CURRENT OPINION IN PHARMACOLOGY

Aberrant alteration of follicular T helper cells in ulcerative colitis patients and its correlations with interleukin-21 and B cell subsets

(2019) Guohui Xue et al.   MEDICINE

Anti-commensal IgG Drives Intestinal Inflammation and Type 17 Immunity in Ulcerative Colitis

(2019) Tomas Castro-Dopico et al.   IMMUNITY

IgG and Fcγ Receptors in Intestinal Immunity and Inflammation

(2019) Tomas Castro-Dopico et al.   Frontiers in Immunology

Single-Cell Analysis of Crohn’s Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF Therapy

(2019) Jerome C. Martin et al.   CELL

Average Overlap Frequency: A simple metric to evaluate staining quality and community identification in high dimensional mass cytometry experiments

(2018) El-ad David Amir et al.   JOURNAL OF IMMUNOLOGICAL METHODS

Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR

(2018) David Zemmour et al.   NATURE IMMUNOLOGY

Single-cell profiling of breast cancer T cells reveals a tissue-resident memory subset associated with improved prognosis

(2018) Peter Savas et al.   NATURE MEDICINE

Gut microbiota utilize immunoglobulin A for mucosal colonization

(2018) G. P. Donaldson et al.   SCIENCE

Distinct Effector B Cells Induced by Unregulated Toll-like Receptor 7 Contribute to Pathogenic Responses in Systemic Lupus Erythematosus

(2018) Scott A. Jenks et al.   IMMUNITY

Analyses of a Mutant Foxp3 Allele Reveal BATF as a Critical Transcription Factor in the Differentiation and Accumulation of Tissue Regulatory T Cells

(2017) Norihito Hayatsu et al.   IMMUNITY

Antibody-secreting plasma cells persist for decades in human intestine

(2017) Ole J.B. Landsverk et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Ulcerative colitis

(2017) Ryan Ungaro et al.   LANCET

Pathologically expanded peripheral T helper cell subset drives B cells in rheumatoid arthritis

(2017) Deepak A. Rao et al.   NATURE

In situ click chemistry generation of cyclooxygenase-2 inhibitors

(2017) Atul Bhardwaj et al.   Nature Communications

Human Tissue-Resident Memory T Cells Are Defined by Core Transcriptional and Functional Signatures in Lymphoid and Mucosal Sites

(2017) Brahma V. Kumar et al.   Cell Reports

Malaria-induced interferon-γ drives the expansion of Tbethi atypical memory B cells

(2017) Nyamekye Obeng-Adjei et al.   PLoS Pathogens

Host Selection of Microbiota via Differential Adhesion

(2016) Kirstie McLoughlin et al.   Cell Host & Microbe

Leukocyte Trafficking to the Small Intestine and Colon

(2016) Aida Habtezion et al.   GASTROENTEROLOGY

A High-Dimensional Atlas of Human T Cell Diversity Reveals Tissue-Specific Trafficking and Cytokine Signatures

(2016) Michael Thomas Wong et al.   IMMUNITY

Programs for the persistence, vigilance and control of human CD8+ lung-resident memory T cells

(2016) Pleun Hombrink et al.   NATURE IMMUNOLOGY

Hobit and Blimp1 instruct a universal transcriptional program of tissue residency in lymphocytes

(2016) L. K. Mackay et al.   SCIENCE

Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

(2016) Greg Finak et al.   Scientific Reports

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

(2015) Franziska Paul et al.   CELL

FlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data

(2015) Sofie Van Gassen et al.   CYTOMETRY PART A

Pathophysiology of T follicular helper cells in humans and mice

(2015) Hideki Ueno et al.   NATURE IMMUNOLOGY

Early-life compartmentalization of human T cell differentiation and regulatory function in mucosal and lymphoid tissues

(2015) Joseph J C Thome et al.   NATURE MEDICINE

Malaria-associated atypical memory B cells exhibit markedly reduced B cell receptor signaling and effector function

(2015) Silvia Portugal et al.   eLife

Regularization Paths for Generalized Linear Models via Coordinate Descent

(2015) Jerome Friedman et al.   Journal of Statistical Software

Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types

(2014) D. A. Jaitin et al.   SCIENCE

Circulating follicular helper T cells in Crohn’s disease (CD) and CD-associated colorectal cancer

(2014) Zhenlong Wang et al.   TUMOR BIOLOGY

EMerging BiomARKers in Inflammatory Bowel Disease (EMBARK) Study Identifies Fecal Calprotectin, Serum MMP9 and Serum IL-22 as a Novel Combination of Biomarkers for Crohn's Disease Activity: Role of Cross-Sectional Imaging

(2013) William A Faubion et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

The who's who of T-cell differentiation: Human memory T-cell subsets

(2013) Yolanda D. Mahnke et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Mucosal CXCR4+IgG plasma cells contribute to the pathogenesis of human ulcerative colitis through FcγR-mediated CD14 macrophage activation

(2012) Michihide Uo et al.   GUT

The majority of intestinal IgA+ and IgG+ plasmablasts in the human gut are antigen-specific

(2011) Julia Benckert et al.   JOURNAL OF CLINICAL INVESTIGATION

A Plasmablast Biomarker for Nonresponse to Antibody Therapy to CD20 in Rheumatoid Arthritis

(2011) K. Owczarczyk et al.   Science Translational Medicine

Whole-exome sequencing for finding de novo mutations in sporadic mental retardation

(2011) Peter N Robinson   GENOME BIOLOGY

ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

(2010) Matthew D. Wilkerson et al.   BIOINFORMATICS

Increased numbers of immature plasma cells in peripheral blood specifically overexpress chemokine receptor CXCR3 and CXCR4 in patients with ulcerative colitis

(2010) S. Hosomi et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Characterization of Interleukin-17–Producing Regulatory T Cells in Inflamed Intestinal Mucosa From Patients With Inflammatory Bowel Diseases

(2010) Zaruhi Hovhannisyan et al.   GASTROENTEROLOGY

Induction of interleukin-10 expression through Fcα receptor in human monocytes and monocyte-derived dendritic cells: role of p38 MAPKinase

(2010) Charles Pilette et al.   IMMUNOLOGY AND CELL BIOLOGY