Analysis of genomic rearrangements by using the Burrows-Wheeler transform of short-read data.

ABSTRACT:

Background

The potential utility of the Burrows-Wheeler transform (BWT) of a large amount of short-read data ("reads") has not been fully studied. The BWT basically serves as a lossless dictionary of reads, unlike the heuristic and lossy reads-to-genome mapping results conventionally obtained in the first step of sequence analysis. Thus, it is naturally expected to lead to development of sensitive methods for analysis of short-read data. Recently, one of the most active areas of research in sequence analysis is sensitive detection of rare genomic rearrangements from whole-genome sequencing (WGS) data of heterogeneous cancer samples. The application the BWT of reads to the analysis of genomic rearrangements is addressed in this study.

Results

A new method for sensitive detect

SUBMITTER: Kimura K 

PROVIDER: S-EPMC4708002 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature