An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome.

ABSTRACT:

Summary

Many high-throughput sequencing experiments produce paired DNA reads. Paired-end DNA reads provide extra positional information that is useful in reliable mapping of short reads to a reference genome, as well as in downstream analyses of structural variations. Given the importance of paired-end alignments, it is surprising that there have been no previous publications focusing on this topic. In this article, we present a new probabilistic framework to predict the alignment of paired-end reads to a reference genome. Using both simulated and real data, we compare the performance of our method with six other read-mapping tools that provide a paired-end option. We show that our method provides a good combination of accuracy, error rate and computation time, especially in more c

SUBMITTER: Shrestha AM 

PROVIDER: S-EPMC3624798 | biostudies-literature | 2013 Apr

REPOSITORIES: biostudies-literature