Ultra-deep mutant spectrum profiling: improving sequencing accuracy using overlapping read pairs.

ABSTRACT:

Background

High throughput sequencing is beginning to make a transformative impact in the area of viral evolution. Deep sequencing has the potential to reveal the mutant spectrum within a viral sample at high resolution, thus enabling the close examination of viral mutational dynamics both within- and between-hosts. The challenge however, is to accurately model the errors in the sequencing data and differentiate real viral mutations, particularly those that exist at low frequencies, from sequencing errors.

Results

We demonstrate that overlapping read pairs (ORP) -- generated by combining short fragment sequencing libraries and longer sequencing reads -- significantly reduce sequencing error rates and improve rare variant detection accuracy. Using this sequencing protocol and

SUBMITTER: Chen-Harris H 

PROVIDER: S-EPMC3599684 | biostudies-literature | 2013 Feb

REPOSITORIES: biostudies-literature