repgenHMM: a dynamic programming tool to infer the rules of immune receptor generation from sequence data

Consistency of VDJ Rearrangement and Substitution Parameters Enables Accurate B Cell Receptor Sequence Annotation

(2016) Duncan K. Ralph et al.   PLoS Computational Biology

Predicting protein functions using incomplete hierarchical labels

(2015) Guoxian Yu et al.   BMC BIOINFORMATICS

Structural basis for a novel mechanism of DNA bridging and alignment in eukaryotic DSB DNA repair

(2015) J. Gouge et al.   EMBO JOURNAL

MiXCR: software for comprehensive adaptive immunity profiling

(2015) Dmitriy A Bolotin et al.   NATURE METHODS

Inferring processes underlying B-cell repertoire diversity

(2015) Yuval Elhanati et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Assigning and visualizing germline genes in antibody repertoires

(2015) Simon D. W. Frost et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Automated analysis of high-throughput B-cell sequencing data reveals a high frequency of novel immunoglobulin V gene segment alleles

(2015) Daniel Gadala-Maria et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

VDJSeq-Solver: In Silico V(D)J Recombination Detection Tool

(2015) Giulia Paciello et al.   PLoS One

Check MAIT

(2014) L. Gapin   JOURNAL OF IMMUNOLOGY

The promise and challenge of high-throughput sequencing of the antibody repertoire

(2014) George Georgiou et al.   NATURE BIOTECHNOLOGY

Towards error-free profiling of immune repertoires

(2014) Mikhail Shugay et al.   NATURE METHODS

Distinctive properties of identical twins' TCR repertoires revealed by high-throughput sequencing

(2014) I. V. Zvyagin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Decombinator: a tool for fast, efficient gene assignment in T-cell receptor sequences using a finite state machine

(2013) N. Thomas et al.   BIOINFORMATICS

Immunosequencing: applications of immune repertoire deep sequencing

(2013) Harlan Robins   CURRENT OPINION IN IMMUNOLOGY

Huge Overlap of Individual TCR Beta Repertoires

(2013) Mikhail Shugay et al.   Frontiers in Immunology

Next generation sequencing for TCR repertoire profiling: Platform-specific features and correction algorithms

(2012) Dmitry A. Bolotin et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

NKT and MAIT invariant TCRα sequences can be produced efficiently by VJ gene recombination

(2012) Hui Yee Greenaway et al.   IMMUNOBIOLOGY

A dynamic and intricate regulatory network determines Pseudomonas aeruginosa virulence

(2012) Deepak Balasubramanian et al.   NUCLEIC ACIDS RESEARCH

Statistical inference of the generation probability of T-cell receptors from sequence repertoires

(2012) A. Murugan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

V(D)J Recombination: Mechanisms of Initiation

(2011) David G. Schatz et al.   Annual Review of Genetics

A Mechanism for TCR Sharing between T Cell Subsets and Individuals Revealed by Pyrosequencing

(2011) Vanessa Venturi et al.   JOURNAL OF IMMUNOLOGY

SoDA2: a Hidden Markov Model approach for identification of immunoglobulin rearrangements

(2010) S. Munshaw et al.   BIOINFORMATICS

Comprehensive assessment of T-cell receptor  -chain diversity in    T cells

(2009) H. S. Robins et al.   BLOOD

Ab-origin: an enhanced tool to identify the sourcing gene segments in germline for rearranged antibodies

(2008) Xiaojing Wang et al.   BMC BIOINFORMATICS

IMGT/V-QUEST: the highly customized and integrated system for IG and TR standardized V-J and V-D-J sequence analysis

(2008) X. Brochet et al.   NUCLEIC ACIDS RESEARCH