Designing Efficient Spaced Seeds for SOLiD Read Mapping
Joint Authors
Kucherov, Gregory
Gîrdea, Marta
Noé, Laurent
Source
Issue
Vol. 2010, Issue 2010 (31 Dec. 2010), pp.1-12, 12 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2010-09-16
Country of Publication
Egypt
No. of Pages
12
Main Subjects
Natural & Life Sciences (Multidisciplinary)
Biology
Abstract EN
The advent of high-throughput sequencing technologies constituted a major advance in genomic studies, offering new prospects in a wide range of applications.We propose a rigorous and flexible algorithmic solution to mapping SOLiD color-space reads to a reference genome.
The solution relies on an advanced method of seed design that uses a faithful probabilistic model of read matches and, on the other hand, a novel seeding principle especially adapted to read mapping.
Our method can handle both lossy and lossless frameworks and is able to distinguish, at the level of seed design, between SNPs and reading errors.
We illustrate our approach by several seed designs and demonstrate their efficiency.
American Psychological Association (APA)
Noé, Laurent& Gîrdea, Marta& Kucherov, Gregory. 2010. Designing Efficient Spaced Seeds for SOLiD Read Mapping. Advances in Bioinformatics،Vol. 2010, no. 2010, pp.1-12.
https://search.emarefa.net/detail/BIM-492267
Modern Language Association (MLA)
Noé, Laurent…[et al.]. Designing Efficient Spaced Seeds for SOLiD Read Mapping. Advances in Bioinformatics No. 2010 (2010), pp.1-12.
https://search.emarefa.net/detail/BIM-492267
American Medical Association (AMA)
Noé, Laurent& Gîrdea, Marta& Kucherov, Gregory. Designing Efficient Spaced Seeds for SOLiD Read Mapping. Advances in Bioinformatics. 2010. Vol. 2010, no. 2010, pp.1-12.
https://search.emarefa.net/detail/BIM-492267
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-492267