Feature selection using a one dimensional naive Bayes' classifier increases the accuracy of support vector machine classification of CDR3 repertoires.

ABSTRACT:

Motivation

Somatic DNA recombination, the hallmark of vertebrate adaptive immunity, has the potential to generate a vast diversity of antigen receptor sequences. How this diversity captures antigen specificity remains incompletely understood. In this study we use high throughput sequencing to compare the global changes in T cell receptor β chain complementarity determining region 3 (CDR3β) sequences following immunization with ovalbumin administered with complete Freund's adjuvant (CFA) or CFA alone.

Results

The CDR3β sequences were deconstructed into short stretches of overlapping contiguous amino acids. The motifs were ranked according to a one-dimensional Bayesian classifier score comparing their frequency in the repertoires of the two immunization classes. The top rankin

SUBMITTER: Cinelli M 

PROVIDER: S-EPMC5860388 | biostudies-literature | 2017 Apr

REPOSITORIES: biostudies-literature