Efficient storage of high throughput DNA sequencing data using reference-based compression.

ABSTRACT: Data storage costs have become an appreciable proportion of total cost in the creation and analysis of DNA sequence data. Of particular concern is that the rate of increase in DNA sequencing is significantly outstripping the rate of increase in disk storage capacity. In this paper we present a new reference-based compression method that efficiently compresses DNA sequences for storage. Our approach works for resequencing experiments that target well-studied genomes. We align new sequences to a reference genome and then encode the differences between the new sequence and the reference genome for storage. Our compression method is most efficient when we allow controlled loss of data in the saving of quality information and unaligned sequences. With this new compression method we observe expo

SUBMITTER: Hsi-Yang Fritz M 

PROVIDER: S-EPMC3083090 | biostudies-literature | 2011 May

REPOSITORIES: biostudies-literature