VDJviz: a versatile browser for immunogenomics data

Individual heritable differences result in unique cell lymphocyte receptor repertoires of naïve and antigen-experienced cells

(2016) Florian Rubelt et al.   Nature Communications

IMSEQ—a fast and error aware approach to immunogenetic sequence analysis

(2015) Leon Kuchenbecker et al.   BIOINFORMATICS

ImmunExplorer (IMEX): a software framework for diversity and clonality analyses of immunoglobulins and T cell receptors on the basis of IMGT/HighV-QUEST preprocessed NGS data

(2015) Susanne Schaller et al.   BMC BIOINFORMATICS

Quantitative Profiling of Immune Repertoires for Minor Lymphocyte Counts Using Unique Molecular Identifiers

(2015) Evgeny S. Egorov et al.   JOURNAL OF IMMUNOLOGY

MiXCR: software for comprehensive adaptive immunity profiling

(2015) Dmitriy A Bolotin et al.   NATURE METHODS

High-throughput pairing of T cell receptor α and β sequences

(2015) Bryan Howie et al.   Science Translational Medicine

Characteristics of Tumor Infiltrating Lymphocyte and Circulating Lymphocyte Repertoires in Pancreatic Cancer by the Sequencing of T Cell Receptors

(2015) Xueli Bai et al.   Scientific Reports

pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires

(2014) Jason A. Vander Heiden et al.   BIOINFORMATICS

Fast multiclonal clusterization of V(D)J recombinations from high-throughput sequencing

(2014) Mathieu Giraud et al.   BMC GENOMICS

T-cell receptor repertoires share a restricted set of public and abundant CDR3 sequences that are associated with self-related immunity

(2014) Asaf Madi et al.   GENOME RESEARCH

T cell repertoire following autologous stem cell transplantation for multiple sclerosis

(2014) Paolo A. Muraro et al.   JOURNAL OF CLINICAL INVESTIGATION

Age-Related Decrease in TCR Repertoire Diversity Measured with Deep and Normalized Sequence Profiling

(2014) O. V. Britanova et al.   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

Diversity and clonal selection in the human T-cell repertoire

(2014) Q. Qi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rarefaction and extrapolation of phylogenetic diversity

(2014) Anne Chao et al.   Methods in Ecology and Evolution

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

(2013) N. Thomas et al.   BIOINFORMATICS

Pairing of T-cell receptor chains via emulsion PCR

(2013) Maria A. Turchaninova et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire

(2013) Brandon J DeKosky et al.   NATURE BIOTECHNOLOGY

MiTCR: software for T-cell receptor sequencing data analysis

(2013) Dmitriy A Bolotin et al.   NATURE METHODS

IgBLAST: an immunoglobulin variable domain sequence analysis tool

(2013) Jian Ye et al.   NUCLEIC ACIDS RESEARCH

Mother and Child T Cell Receptor Repertoires: Deep Profiling Study

(2013) Ekaterina V. Putintseva et al.   Frontiers in Immunology

Huge Overlap of Individual TCR Beta Repertoires

(2013) Mikhail Shugay et al.   Frontiers in Immunology

First autologous hematopoietic SCT for ankylosing spondylitis: a case report and clues to understanding the therapy

(2012) O V Britanova et al.   BONE MARROW TRANSPLANTATION

Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages

(2012) R. K. Colwell et al.   Journal of Plant Ecology

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

Quantitative tracking of T cell clones after haematopoietic stem cell transplantation

(2011) Ilgar Z. Mamedov et al.   EMBO Molecular Medicine

Rep-Seq: uncovering the immunological repertoire through next-generation sequencing

(2011) Jennifer Benichou et al.   IMMUNOLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Counting absolute numbers of molecules using unique molecular identifiers

(2011) Teemu Kivioja et al.   NATURE METHODS

Convergent recombination shapes the clonotypic landscape of the naive T-cell repertoire

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

High throughput sequencing reveals a complex pattern of dynamic interrelationships among human T cell subsets

(2010) C. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

(2009) J. W. Nicol et al.   BIOINFORMATICS

Profiling the T-cell receptor beta-chain repertoire by massively parallel sequencing

(2009) J. D. Freeman et al.   GENOME RESEARCH

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Age-associated decline in T cell repertoire diversity leads to holes in the repertoire and impaired immunity to influenza virus

(2008) Eric J. Yager et al.   JOURNAL OF EXPERIMENTAL MEDICINE

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