Overlap detection for a genome assembly based on genomic signal processing
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F17%3APU125424" target="_blank" >RIV/00216305:26220/17:PU125424 - isvavai.cz</a>
Result on the web
<a href="http://ieeexplore.ieee.org/xpl/mostRecentIssue.jsp?punumber=8100282" target="_blank" >http://ieeexplore.ieee.org/xpl/mostRecentIssue.jsp?punumber=8100282</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1109/CBMS.2017.140" target="_blank" >10.1109/CBMS.2017.140</a>
Alternative languages
Result language
angličtina
Original language name
Overlap detection for a genome assembly based on genomic signal processing
Original language description
Although the genome sequences of most studied organisms, like human, E. coli, and others are already known, de novo genome sequencing remains popular as a majority of genomes remains unknown. Unfortunately, sequencing machines are able to read only short fragments of DNA. Therefore, one of the basic steps in reconstructing novel genomes lies in putting these pieces of DNA, called reads’, together into complete genome sequences using a process known as genome assembly. Reads joining, however, requires efficient detection of their overlaps. This is commonly performed by comparing the particular characters (A, C, G, T) of the reads using string processing techniques. In this paper, we present an alternative way of detecting overlaps using genomic signal processing. Unlike string comparison, numerical phase signals reflect the complementarity of double stranded DNA making the signal ideal for effective strand independent overlap detection using covariance with high accuracy.
Czech name
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Czech description
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Classification
Type
D - Article in proceedings
CEP classification
—
OECD FORD branch
10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)
Result continuities
Project
<a href="/en/project/GA17-01821S" target="_blank" >GA17-01821S: High throughput bacterial genome assembly and annotation techniques using genomic signal processing</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
Others
Publication year
2017
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Article name in the collection
2017 IEEE 30th International Symposium on Computer-Based Medical Systems
ISBN
978-1-5386-1710-6
ISSN
2372-9198
e-ISSN
—
Number of pages
6
Pages from-to
301-305
Publisher name
IEEE Computer Society
Place of publication
USA
Event location
Thessaloniki
Event date
Jun 22, 2017
Type of event by nationality
WRD - Celosvětová akce
UT code for WoS article
000424864800062