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- Title
Hardware implementation of infinite impulse response anti‐notch filter for exon region identification in eukaryotic genes.
- Authors
Pathak, Vikas; Jagannath Nanda, Satyasai; Mahesh Joshi, Amit; Sekhar Sahu, Sitanshu
- Abstract
Summary: The discrimination of exons from introns in the DNA sequence of a eukaryotic gene is important to understand the functionality of protein formation inside a living organism. Several signal processing techniques involving transforms and filtering have been used to identify the exon regions by exploring the periodicity‐3 property. Fast processing of massive DNA sequences is desirable to detect the disease‐causing mechanism, which is helpful to prepare individual‐centric drugs. In this manuscript, a hardware implementation is carried out for the direct form‐II structure of the infinite impulse response anti‐notch filter to achieve the fast processing of the DNA sequence. Implementation result on Zynq‐series (Zybo board) Field Programmable Gate Array (FPGA) reveals that the proposed implementation is capable to identify the exon regions of five benchmark eukaryotic genes. The FPGA implementation has achieved a maximum clock frequency of 34.629 MHz, which is further improved to 54.41 MHz using the retiming concept. Compared with MATLAB 2014a simulation, the proposed FPGA implementation has achieved similar accuracy with 39 to 43 times faster computing time for the five benchmark data sets. Further, an Application Specific Integrated Circuit (ASIC) implementation is carried out in the CADENCE Register Transfer Level (RTL) compiler tool with GPDK 90‐nm technology, due to which the hardware anti‐notch filter is 120 to 133 times faster compared with its MATLAB counterpart while maintaining the comparable accuracy.
- Subjects
INFINITE impulse response filters; APPLICATION-specific integrated circuits; FIELD programmable gate arrays; NOTCH genes; NUCLEOTIDE sequence; DNA microarrays; NOTCH filters; SIGNAL processing
- Publication
International Journal of Circuit Theory & Applications, 2020, Vol 48, Issue 12, p2242
- ISSN
0098-9886
- Publication type
Article
- DOI
10.1002/cta.2838