An algorithm for mapping short reads to a dynamically changing genomic sequence
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68407700%3A21240%2F10%3A00177976" target="_blank" >RIV/68407700:21240/10:00177976 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.1109/BIBM.2010.5706551" target="_blank" >http://dx.doi.org/10.1109/BIBM.2010.5706551</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1109/BIBM.2010.5706551" target="_blank" >10.1109/BIBM.2010.5706551</a>
Alternative languages
Result language
angličtina
Original language name
An algorithm for mapping short reads to a dynamically changing genomic sequence
Original language description
The constant advances in sequencing technology have redefined the way genome sequencing is performed. They are able to produce tens of millions of short sequences (reads), during a single experiment, and with a much lower cost than previously possible. Due to this massive amount of data, efficient algorithms for mapping these reads to reference sequences are in great demand, and recently, there has been ample work for publishing such algorithms. In this paper, we study a different version of this problem: mapping these reads to a dynamically changing genomic sequence. We propose a new practical algorithm, which employs a suitable data structure that takes into account potential dynamic effects (replacements, insertions, deletions) on the genomic sequence. The presented experimental results demonstrate that the proposed approach can be applied to address the problem of mapping millions of reads to multiple genomic sequences.
Czech name
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Czech description
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Classification
Type
D - Article in proceedings
CEP classification
IN - Informatics
OECD FORD branch
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Result continuities
Project
<a href="/en/project/GA201%2F09%2F0807" target="_blank" >GA201/09/0807: String and tree analysis and processing</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
Others
Publication year
2010
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Article name in the collection
2010 IEEE International Conference on Bioinformatics and Biomedicine
ISBN
978-1-4244-8305-1
ISSN
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e-ISSN
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Number of pages
4
Pages from-to
133-136
Publisher name
IEEE Computer Society
Place of publication
Los Alamitos
Event location
Hong Kong
Event date
Dec 18, 2010
Type of event by nationality
WRD - Celosvětová akce
UT code for WoS article
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