Conference paper

MARTÍNEK Tomáš and LEXA Matej. Architecture Model for Approximate Tandem Repeat Detection. In: 22nd IEEE International Conference on Application-specific Systems, Architectures and Processors. Santa Monica, California: IEEE Computer Society, 2011, pp. 239-242. ISBN 978-1-4577-1290-6.
Publication language:english
Original title:Architecture Model for Approximate Tandem Repeat Detection
Title (cs):Model architektury pro hledání přibližných tandemových opakování
Pages:239-242
Proceedings:22nd IEEE International Conference on Application-specific Systems, Architectures and Processors
Conference:22nd IEEE International Conference on Application-specific Systems, Architectures and Processors
Place:Santa Monica, California, US
Year:2011
ISBN:978-1-4577-1290-6
Publisher:IEEE Computer Society
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Keywords
Approximate tandem repeat; Architecture model; Automated mapping; FPGA;
Annotation
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.
BibTeX:
@INPROCEEDINGS{
   author = {Tom{\'{a}}{\v{s}} Mart{\'{i}}nek and Matej Lexa},
   title = {Architecture Model for Approximate Tandem Repeat Detection},
   pages = {239--242},
   booktitle = {22nd IEEE International Conference on Application-specific
	Systems, Architectures and Processors},
   year = {2011},
   location = {Santa Monica, California, US},
   publisher = {IEEE Computer Society},
   ISBN = {978-1-4577-1290-6},
   language = {english},
   url = {http://www.fit.vutbr.cz/research/view_pub.php?id=9671}
}

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