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 ve WoS nebo Scopus

Jazyk

angličtina

Originální abstrakt

We report the latest details on improvements made or planned for the VPCR simulation software currently accessible on the Internet. We describe the inner workings of the dynamic amplification simulation model, concentrating mostly on the time- and sensitivity-critical step of sequence matching. Replacement of BLAST by the more sensitive and faster PRIMEX similarity search program resulted in a marked improvement of PCR product predictions. Further speed improvements were acheived using 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"
}