Epigenetic dysregulation of naive CD4+ T-cell activation genes in childhood food allergy

Single-cell profiling of peanut-responsive T cells in patients with peanut allergy reveals heterogeneous effector T H 2 subsets

(2018) David Chiang et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Forkhead box protein 3 demethylation is associated with tolerance induction in peanut-induced intestinal allergy

(2018) Meiqin Wang et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Metabolic and Epigenetic Coordination of T Cell and Macrophage Immunity

(2017) Anthony T. Phan et al.   IMMUNITY

Early life innate immune signatures of persistent food allergy

(2017) Melanie R. Neeland et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The prevalence of food allergy and other allergic diseases in early childhood in a population-based study: HealthNuts age 4-year follow-up

(2017) Rachel L. Peters et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

A phenotypically and functionally distinct human T H 2 cell subpopulation is associated with allergic disorders

(2017) Erik Wambre et al.   Science Translational Medicine

Epigenetics and allergy: from basic mechanisms to clinical applications

(2017) Daniel P Potaczek et al.   Epigenomics

Genome-wide association study identifies the SERPINB gene cluster as a susceptibility locus for food allergy

(2017) Ingo Marenholz et al.   Nature Communications

GSuite HyperBrowser: integrative analysis of dataset collections across the genome and epigenome

(2017) Boris Simovski et al.   GigaScience

Polymorphisms affecting vitamin D–binding protein modify the relationship between serum vitamin D (25[OH]D3) and food allergy

(2016) Jennifer J. Koplin et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Epigenome-wide association study links site-specific DNA methylation changes with cow's milk allergy

(2016) Xiumei Hong et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

A Myc-dependent division timer complements a cell-death timer to regulate T cell and B cell responses

(2016) Susanne Heinzel et al.   NATURE IMMUNOLOGY

Food allergy and the gut

(2016) Anna Nowak-Wegrzyn et al.   Nature Reviews Gastroenterology & Hepatology

Cord blood monocyte–derived inflammatory cytokines suppress IL-2 and induce nonclassic “T H 2-type” immunity associated with development of food allergy

(2016) Yuxia Zhang et al.   Science Translational Medicine

Epigenetic features of FoxP3 in children with cow’s milk allergy

(2016) Lorella Paparo et al.   Clinical Epigenetics

Cow’s milk allergy in Dutch children: an epigenetic pilot survey

(2016) Nicole C. M. Petrus et al.   Clinical and Translational Allergy

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

The role of gene-environment interactions in the development of food allergy

(2015) Melanie R Neeland et al.   Expert Review of Gastroenterology & Hepatology

Differences in DNA methylation profile of Th1 and Th2 cytokine genes are associated with tolerance acquisition in children with IgE-mediated cow’s milk allergy

(2015) Roberto Berni Canani et al.   Clinical Epigenetics

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

(2014) Martin J. Aryee et al.   BIOINFORMATICS

Epigenetics and Development of Food Allergy (FA) in Early Childhood

(2014) Xiumei Hong et al.   CURRENT ALLERGY AND ASTHMA REPORTS

Epigenome-wide association study reveals longitudinally stable DNA methylation differences in CD4+ T cells from children with IgE-mediated food allergy

(2014) David Martino et al.   Epigenetics

Peanut oral immunotherapy results in increased antigen-induced regulatory T-cell function and hypomethylation of forkhead box protein 3 (FOXP3)

(2014) Aleena Syed et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Assessing Methods for Assigning SNPs to Genes in Gene-Based Tests of Association Using Common Variants

(2013) Ashley Petersen et al.   PLoS One

Software for Computing and Annotating Genomic Ranges

(2013) Michael Lawrence et al.   PLoS Computational Biology

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

(2012) A. A. Shabalin   BIOINFORMATICS

Network Analysis Reveals Centrally Connected Genes and Pathways Involved in CD8+ T Cell Exhaustion versus Memory

(2012) Travis A. Doering et al.   IMMUNITY

Camera: a competitive gene set test accounting for inter-gene correlation

(2012) Di Wu et al.   NUCLEIC ACIDS RESEARCH

Complete pipeline for Infinium® Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation

(2012) Nizar Touleimat et al.   Epigenomics

T-cell activation genes differentially expressed at birth in CD4+ T-cells from children who develop IgE food allergy

(2011) D. J. Martino et al.   ALLERGY

Prevalence of challenge-proven IgE-mediated food allergy using population-based sampling and predetermined challenge criteria in infants

(2011) Nicholas J. Osborne et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Predetermined challenge eligibility and cessation criteria for oral food challenges in the HealthNuts population-based study of infants

(2011) Jennifer J. Koplin et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The Genomic HyperBrowser: inferential genomics at the sequence level

(2011) Geir K Sandve et al.   GENOME BIOLOGY

Critical roles of Bcl11b in T-cell development and maintenance of T-cell identity

(2010) Pentao Liu et al.   IMMUNOLOGICAL REVIEWS

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap

(2008) A. D. Johnson et al.   BIOINFORMATICS

Children with egg allergy have evidence of reduced neonatal CD4+CD25+CD127lo/− regulatory T cell function

(2008) Miranda Smith et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Presymptomatic differences in Toll-like receptor function in infants who have allergy

(2008) Susan L. Prescott et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY