Epigenetic Enhancer Marks and Transcription Factor Binding Influence Vκ Gene Rearrangement in Pre-B Cells and Pro-B Cells

Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers

(2018) Jian Yan et al.   CELL RESEARCH

Variable Extent of Lineage-Specificity and Developmental Stage-Specificity of Cohesin and CCCTC-Binding Factor Binding Within the Immunoglobulin and T Cell Receptor Loci

(2018) Salvatore Loguercio et al.   Frontiers in Immunology

Cutting Edge: Proper Orientation of CTCF Sites in Cer Is Required for Normal Jκ-Distal and Jκ-Proximal Vκ Gene Usage

(2018) Eden Kleiman et al.   JOURNAL OF IMMUNOLOGY

PU.1 Regulates Ig Light Chain Transcription and Rearrangement in Pre-B Cells during B Cell Development

(2017) Carolina R. Batista et al.   JOURNAL OF IMMUNOLOGY

Local Chromatin Features Including PU.1 and IKAROS Binding and H3K4 Methylation Shape the Repertoire of Immunoglobulin Kappa Genes Chosen for V(D)J Recombination

(2017) Louise S. Matheson et al.   Frontiers in Immunology

Detecting DNA double-stranded breaks in mammalian genomes by linear amplification–mediated high-throughput genome-wide translocation sequencing

(2016) Jiazhi Hu et al.   Nature Protocols

YY1 plays an essential role at all stages of B-cell differentiation

(2016) Eden Kleiman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Highly sensitive and unbiased approach for elucidating antibody repertoires

(2016) Sherry G. Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two Mutually Exclusive Local Chromatin States Drive Efficient V(D)J Recombination

(2016) Daniel J. Bolland et al.   Cell Reports

CTCF Binding Polarity Determines Chromatin Looping

(2015) Elzo de Wit et al.   MOLECULAR CELL

Nuclear positioning rather than contraction controls ordered rearrangements of immunoglobulin loci

(2015) Magdalena B. Rother et al.   NUCLEIC ACIDS RESEARCH

Building Predictive Models inRUsing thecaretPackage

(2015) Max Kuhn   Journal of Statistical Software

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

Cutting Edge: Developmental Stage-Specific Recruitment of Cohesin to CTCF Sites throughout Immunoglobulin Loci during B Lymphocyte Development

(2014) S. C. Degner et al.   JOURNAL OF IMMUNOLOGY

A Major Deletion in the Vκ–Jκ Intervening Region Results in Hyperelevated Transcription of Proximal Vκ Genes and a Severely Restricted Repertoire

(2014) Yougui Xiang et al.   JOURNAL OF IMMUNOLOGY

Stage-specific control of early B cell development by the transcription factor Ikaros

(2014) Tanja A Schwickert et al.   NATURE IMMUNOLOGY

Pre-B Cell Receptor Signaling Induces Immunoglobulin κ Locus Accessibility by Functional Redistribution of Enhancer-Mediated Chromatin Interactions

(2014) Ralph Stadhouders et al.   PLOS BIOLOGY

V  Gene Repertoire and Locus Contraction Are Specified by Critical DNase I Hypersensitive Sites within the V -J  Intervening Region

(2013) Y. Xiang et al.   JOURNAL OF IMMUNOLOGY

Deep Sequencing of the Murine Igh Repertoire Reveals Complex Regulation of Nonrandom V Gene Rearrangement Frequencies

(2013) N. M. Choi et al.   JOURNAL OF IMMUNOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

The B-cell identity factor Pax5 regulates distinct transcriptional programmes in early and late B lymphopoiesis

(2012) Roger Revilla-i-Domingo et al.   EMBO JOURNAL

Skewed Primary Ig  Repertoire and V-J Joining in C57BL/6 Mice: Implications for Recombination Accessibility and Receptor Editing

(2012) M. Aoki-Ota et al.   JOURNAL OF IMMUNOLOGY

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

Overview of random forest methodology and practical guidance with emphasis on computational biology and bioinformatics

(2012) Anne-Laure Boulesteix et al.   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

The DNA-Binding Protein CTCF Limits Proximal Vκ Recombination and Restricts κ Enhancer Interactions to the Immunoglobulin κ Light Chain Locus

(2011) Claudia Ribeiro de Almeida et al.   IMMUNITY

A Multifunctional Element in the Mouse Ig  Locus That Specifies Repertoire and Ig Loci Subnuclear Location

(2011) Y. Xiang et al.   JOURNAL OF IMMUNOLOGY

Ras activation of Erk restores impaired tonic BCR signaling and rescues immature B cell differentiation

(2010) Sarah L. Rowland et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Multiple RNA Surveillance Mechanisms Cooperate to Reduce the Amount of Nonfunctional Ig  Transcripts

(2010) G. Chemin et al.   JOURNAL OF IMMUNOLOGY

The Ig  Gene Enhancers, E3' and Ed, Are Essential for Triggering Transcription

(2010) X. Zhou et al.   JOURNAL OF IMMUNOLOGY

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate

(2010) Yin C Lin et al.   NATURE IMMUNOLOGY

RSSsite: a reference database and prediction tool for the identification of cryptic Recombination Signal Sequences in human and murine genomes

(2010) I. Merelli et al.   NUCLEIC ACIDS RESEARCH

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY