Detail publikace

Genomic PCR simulation with hardware-accelerated approximate sequence matching

LEXA, M. MARTÍNEK, T. BECK, P. FUČÍK, O. VALLE, G. ZARA, I.

Originální název

Genomic PCR simulation with hardware-accelerated approximate sequence matching

Typ

článek ve sborníku mimo WoS a Scopus

Jazyk

angličtina

Originální 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

Autoři

LEXA, M.; MARTÍNEK, T.; BECK, P.; FUČÍK, O.; VALLE, G.; ZARA, I.

Rok RIV

2007

Vydáno

4. 6. 2007

Nakladatel

European Council for Modelling and Simulation

Místo

Praha

ISBN

978-0-9553018-2-7

Kniha

21st European Conference on Modelling and Simulation

Strany od

333

Strany do

338

Strany počet

6

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"
}