Result Details
Architecture Model for Approximate Tandem Repeat Detection
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.
Approximate tandem repeat; Architecture model; Automated mapping; FPGA;
@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/"
}
In vitro and in silico identification of non-canonical DNA structures in genomic sequences, GACR, Standardní projekty, GA204/08/1560, start: 2008-04-01, end: 2010-12-31, completed
Security-Oriented Research in Information Technology, MŠMT, Institucionální prostředky SR ČR (např. VZ, VC), MSM0021630528, start: 2007-01-01, end: 2013-12-31, running