Detail výsledku

Genomic PCR simulation with hardware-accelerated approximate sequence matching

LEXA, M.; MARTÍNEK, T.; BECK, P.; FUČÍK, O.; VALLE, G.; ZARA, I. Genomic PCR simulation with hardware-accelerated approximate sequence matching. 21st European Conference on Modelling and Simulation. Praha: European Council for Modelling and Simulation, 2007. p. 333-338. ISBN: 978-0-9553018-2-7.
Typ
článek ve sborníku konference
Jazyk
anglicky
Autoři
Lexa Matej, Ing., Ph.D., UPSY (FIT)
Martínek Tomáš, doc. Ing., Ph.D., UPSY (FIT)
Beck Patrik, Bc.
Fučík Otto, doc. Dr. Ing., UPSY (FIT)
Valle Giorgio
Zara Ivano
Abstrakt

We report the latest details on improvements made or planned for theVPCR simulation software currently accessible on the Internet. Wedescribe the inner workings of the dynamic amplification simulationmodel, concentrating mostly on the time- and sensitivity-critical stepof sequence matching. Replacement of BLAST by the more sensitive andfaster PRIMEX similarity search program resulted in a marked improvementof PCR product predictions. Further speed improvements were acheivedusing hardware acceleration of approximate sequence matching.

Klíčová slova

Virtual PCR; FPGA; sequence alignment; mathematical model

Rok
2007
Strany
333–338
Sborník
21st European Conference on Modelling and Simulation
Konference
21st European Conference on Modelling and Simulation
ISBN
978-0-9553018-2-7
Vydavatel
European Council for Modelling and Simulation
Místo
Praha
BibTeX 
@inproceedings{BUT26056,
  author="Matej {Lexa} and Tomáš {Martínek} and Patrik {Beck} and Otto {Fučík} and Giorgio {Valle} and Ivano {Zara}",
  title="Genomic PCR simulation with hardware-accelerated approximate sequence matching",
  booktitle="21st European Conference on Modelling and Simulation",
  year="2007",
  pages="333--338",
  publisher="European Council for Modelling and Simulation",
  address="Praha",
  isbn="978-0-9553018-2-7"
}
Projekty
Výzkum informačních technologií z hlediska bezpečnosti, MŠMT, Institucionální prostředky SR ČR (např. VZ, VC), MSM0021630528, zahájení: 2007-01-01, ukončení: 2013-12-31, řešení
Výzkumné skupiny
Výzkumná skupina reprogramovatelných architektur (VZ FPGA)
Pracoviště
Ústav počítačových systémů (UPSY)
Nahoru