Likelihood-Based Inference of B Cell Clonal Families

Ultra-high-throughput sequencing of the immune receptor repertoire from millions of lymphocytes

(2016) Jonathan R McDaniel et al.   Nature Protocols

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

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

Immunization for HIV-1 Broadly Neutralizing Antibodies in Human Ig Knockin Mice

(2015) Pia Dosenovic et al.   CELL

Checkpoints that control B cell development

(2015) Fritz Melchers   JOURNAL OF CLINICAL INVESTIGATION

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

Quantifying evolutionary constraints on B-cell affinity maturation

(2015) Connor O. McCoy et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The mutation patterns in B-cell immunoglobulin receptors reflect the influence of selection acting at multiple time-scales

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

Clonal and cellular dynamics in germinal centers

(2014) Gabriel D Victora et al.   CURRENT OPINION IN IMMUNOLOGY

B cells populating the multiple sclerosis brain mature in the draining cervical lymph nodes

(2014) J. N. H. Stern et al.   Science Translational Medicine

Reconstructing a B-Cell Clonal Lineage. II. Mutation, Selection, and Affinity Maturation

(2014) Thomas B. Kepler et al.   Frontiers in Immunology

Network properties derived from deep sequencing of human B-cell receptor repertoires delineate B-cell populations

(2013) Rachael J.M. Bashford-Rogers et al.   GENOME RESEARCH

HIV-1 neutralizing antibodies: understanding nature's pathways

(2013) John R. Mascola et al.   IMMUNOLOGICAL REVIEWS

Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus

(2013) Hua-Xin Liao et al.   NATURE

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

(2013) Brandon J DeKosky et al.   NATURE BIOTECHNOLOGY

Genetic measurement of memory B-cell recall using antibody repertoire sequencing

(2013) C. Vollmers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Shaping of Human Germline IgH Repertoires Revealed by Deep Sequencing

(2012) K. Larimore et al.   JOURNAL OF IMMUNOLOGY

Analysis of a Clonal Lineage of HIV-1 Envelope V2/V3 Conformational Epitope-Specific Broadly Neutralizing Antibodies and Their Inferred Unmutated Common Ancestors

(2011) M. Bonsignori et al.   JOURNAL OF VIROLOGY

Determinism and stochasticity during maturation of the zebrafish antibody repertoire

(2011) N. Jiang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simulating Trees with a Fixed Number of Extant Species

(2011) Tanja Stadler   SYSTEMATIC BIOLOGY

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

(2010) S. Munshaw et al.   BIOINFORMATICS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs

(2008) Julien Dutheil et al.   BMC EVOLUTIONARY BIOLOGY