Publication detail

Architecture Model for Approximate Tandem Repeat Detection

MARTÍNEK, T. LEXA, M.

Original Title

Architecture Model for Approximate Tandem Repeat Detection

Type

article in a collection out of WoS and Scopus

Language

English

Original Abstract

Algorithms for biological sequence analysis, such as approximate string matching or algorithms for identification of sequence patterns supporting specific structural elements, present good opportunities for hardware acceleration. Implementation of these algorithms often results in architectures based on multidimensional arrays of computing elements. Mapping effectively these computational structures on FPGAs remains one of the challenging problems. This paper focuses on a specific hardware architecture for detection of approximate tandem repeats in sequences. We show how to create a parametrized architecture model combined with an automatic technique that can determine appropriate circuit dimensions with respect to input task parameters and the target platform properties.

Keywords

Approximate tandem repeat; Architecture model; Automated mapping; FPGA;

Authors

MARTÍNEK, T.; LEXA, M.

RIV year

2011

Released

13. 6. 2011

Publisher

IEEE Computer Society

Location

Santa Monica, California

ISBN

978-1-4577-1290-6

Book

22nd IEEE International Conference on Application-specific Systems, Architectures and Processors

Pages from

239

Pages to

242

Pages count

4

URL

https://www.fit.vut.cz/research/publication/9671/

BibTex

@inproceedings{BUT76394,
  author="Tomáš {Martínek} and Matej {Lexa}",
  title="Architecture Model for Approximate Tandem Repeat Detection",
  booktitle="22nd IEEE International Conference on Application-specific Systems, Architectures and Processors",
  year="2011",
  pages="239--242",
  publisher="IEEE Computer Society",
  address="Santa Monica, California",
  doi="10.1109/ASAP.2011.6043277",
  isbn="978-1-4577-1290-6",
  url="https://www.fit.vut.cz/research/publication/9671/"
}