Benchmarking Tree and Ancestral Sequence Inference for B Cell Receptor Sequences.

ABSTRACT: B cell receptor sequences evolve during affinity maturation according to a Darwinian process of mutation and selection. Phylogenetic tools are used extensively to reconstruct ancestral sequences and phylogenetic trees from affinity-matured sequences. In addition to using general-purpose phylogenetic methods, researchers have developed new tools to accommodate the special features of B cell sequence evolution. However, the performance of classical phylogenetic techniques in the presence of B cell-specific features is not well understood, nor how much the newer generation of B cell specific tools represent an improvement over classical methods. In this paper we benchmark the performance of classical phylogenetic and new B cell-specific tools when applied to B cell receptor sequences simulate

SUBMITTER: Davidsen K 

PROVIDER: S-EPMC6220437 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature