Mapping short reads to a genomic sequence with circular structure

Costas S. Iliopoulos; Tewogboye A. Okanlawon; Solon P. Pissis; German Tischler

doi:10.1109/ITAB.2010.5687792

Mapping short reads to a genomic sequence with circular structure

Costas S. Iliopoulos, Tewogboye A. Okanlawon, Solon P. Pissis, German Tischler

Informatics

Research output: Chapter in Book/Report/Conference proceeding › Conference paper

Abstract

The constant advances in sequencing technology are turning whole-genome sequencing into a routine procedure, resulting in massive amounts of data that need to be processed. Tens of gigabytes of data in the form of short reads need to be mapped back to reference sequences, a few gigabases long. These high-throughput (or next-generation) technologies allow researchers to characterise a bacterial genome during a single experiment and at a moderate cost. In this paper, as most of the bacteria have a single circular chromosome, we present a simple, yet efficient, accurate and consistent algorithm, to solve the practical problem of matching millions of short reads to a genomic sequence with circular structure.

Original language	Undefined/Unknown
Title of host publication	Information Technology and Applications in Biomedicine (ITAB), 2010 10th IEEE International Conference
Pages	1-4
Number of pages	4
DOIs	https://doi.org/10.1109/ITAB.2010.5687792
Publication status	Published - 2010

Access to Document

10.1109/ITAB.2010.5687792

Cite this

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AU - Tischler, German

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AB - The constant advances in sequencing technology are turning whole-genome sequencing into a routine procedure, resulting in massive amounts of data that need to be processed. Tens of gigabytes of data in the form of short reads need to be mapped back to reference sequences, a few gigabases long. These high-throughput (or next-generation) technologies allow researchers to characterise a bacterial genome during a single experiment and at a moderate cost. In this paper, as most of the bacteria have a single circular chromosome, we present a simple, yet efficient, accurate and consistent algorithm, to solve the practical problem of matching millions of short reads to a genomic sequence with circular structure.

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