Antibody-Specific Model of Amino Acid Substitution for Immunological Inferences from Alignments of Antibody Sequences

Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies

(2014) Nicole A. Doria-Rose et al.   NATURE

Comprehensive Evaluation and Optimization of Amplicon Library Preparation Methods for High-Throughput Antibody Sequencing

(2014) Ulrike Menzel et al.   PLoS One

Computational design of a pH-sensitive IgG binding protein

(2014) E.-M. Strauch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

State-of the art methodologies dictate new standards for phylogenetic analysis

(2013) Maria Anisimova et al.   BMC EVOLUTIONARY BIOLOGY

CodonPhyML: Fast Maximum Likelihood Phylogeny Estimation under Codon Substitution Models

(2013) Manuel Gil et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2013) Hua-Xin Liao et al.   NATURE

Graph-based modeling of tandem repeats improves global multiple sequence alignment

(2013) Adam M. Szalkowski et al.   NUCLEIC ACIDS RESEARCH

IgBLAST: an immunoglobulin variable domain sequence analysis tool

(2013) Jian Ye et al.   NUCLEIC ACIDS RESEARCH

Mining the antibodyome for HIV-1-neutralizing antibodies with next-generation sequencing and phylogenetic pairing of heavy/light chains

(2013) J. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Application of Next Generation Sequencing to the Understanding of Antibody Repertoires

(2013) Pascale Mathonet et al.   Frontiers in Immunology

The Structural Basis of Antibody-Antigen Recognition

(2013) Inbal Sela-Culang et al.   Frontiers in Immunology

Fast and robust multiple sequence alignment with phylogeny-aware gap placement

(2012) Adam M Szalkowski   BMC BIOINFORMATICS

Evolutionary Genomics of Immunoglobulin-Encoding Loci in Vertebrates

(2012) Sabyasachi Das et al.   CURRENT GENOMICS

AIDing antibody diversity by error-prone mismatch repair

(2012) Richard Chahwan et al.   SEMINARS IN IMMUNOLOGY

Sequencing antibody repertoires

(2011) Nicolas Fischer   mAbs

Focused Evolution of HIV-1 Neutralizing Antibodies Revealed by Structures and Deep Sequencing

(2011) X. Wu et al.   SCIENCE

Antibody recycling by engineered pH-dependent antigen binding improves the duration of antigen neutralization

(2010) Tomoyuki Igawa et al.   NATURE BIOTECHNOLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Precise determination of the diversity of a combinatorial antibody library gives insight into the human immunoglobulin repertoire

(2009) J. Glanville et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

IgTree©: Creating Immunoglobulin variable region gene lineage trees

(2008) Michal Barak et al.   JOURNAL OF IMMUNOLOGICAL METHODS

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION

IMGT(R), the international ImMunoGeneTics information system(R)

(2008) M.-P. Lefranc et al.   NUCLEIC ACIDS RESEARCH