A classification model for G-to-A hypermutation in hepatitis B virus ultra-deep pyrosequencing reads.

ABSTRACT:

Motivation

G → A hypermutation is an innate antiviral defense mechanism, mediated by host enzymes, which leads to the mutational impairment of viruses. Sensitive and specific identification of host-mediated G → A hypermutation is a novel sequence analysis challenge, particularly for viral deep sequencing studies. For example, two of the most common hepatitis B virus (HBV) reverse transcriptase (RT) drug-resistance mutations, A181T and M204I, arise from G → A changes and are routinely detected as low-abundance variants in nearly all HBV deep sequencing samples.

Results

We developed a classification model using measures of G → A excess and predicted indicators of lethal mutation and applied this model to 325 920 unique deep sequencing reads from plasma virus samples from 45 dr

SUBMITTER: Reuman EC 

PROVIDER: S-EPMC2982158 | biostudies-literature | 2010 Dec

REPOSITORIES: biostudies-literature