title: Immunoglobulin Classification Using the Colored Antibody Graph.
abstract: The somatic recombination of V, D, and J gene segments in B-cells introduces a great deal of diversity, and divergence from reference segments. Many recent studies of antibodies focus on the population of antibody transcripts that show which V, D, and J gene segments have been favored for a particular antigen, a repertoire. To properly describe the antibody repertoire, each antibody must be labeled by its constituting V, D, and J gene segment, a task made difficult by somatic recombination and hypermutation events. While previous approaches to repertoire analysis were based on sequential alignments, we describe a new de Bruijn graph-based algorithm to perform VDJ labeling and benchmark its performance.
authors.affiliation: 1 Bioinformatics and Systems Biology Program, University of California San diego , La Jolla, California.
authors.forename: Stefano R
authors.initials: SR
authors.lastname: Bonissone
authors.affiliation: 2 Department of Computer Science and Engineering, University of California San diego , La Jolla, California.
authors.forename: Pavel A
authors.initials: PA
authors.lastname: Pevzner
mesh_terms: D000465:Algorithms; D000818:Animals; D001402:B-Lymphocytes / Q000276:immunology; D019295:Computational Biology / Q000379:methods; D006801:Humans; D007136:Immunoglobulins / Q000145:classification* / Q000235:genetics; D051379:Mice; D060152:V(D)J Recombination
chemical_list: D007136:Immunoglobulins
keywords: antibody repertoire analysis; de Bruijn graph; immunoglobulin classification