Reconfigurable hardware-software codesign methodology for protein identification

Khursheed, S (2016) Reconfigurable hardware-software codesign methodology for protein identification. In: 2016 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2016-8-16 - 2016-8-20, United States.

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Abstract

In this paper we propose an on-the-fly reconfigurable hardware-software codesign based reconfigurable solution for real-time protein identification. Reconfigurable string matching is performed in the disciplines of protein identification and biomarkers discovery. With the generation of plethora of sequenced data and number of biomarkers for several diseases, it is becoming necessary to have an accelerated processing and on-the-fly reconfigurable system design methodology to bring flexibility to its usage in the medical science community without the need of changing the entire hardware every time with the advent of new biomarker or protein. The proteome database of human at UniProtKB (Proteome ID up000005640) comprising of 42132 canonical and isoform proteins with variable database-size are used for testing the proposed design and the performance of the proposed system has been found to compare favorably with the state-of-the-art approaches with the additional advantage of real-time reconfigurability.

Item Type:	Conference or Workshop Item (Unspecified)
Uncontrolled Keywords:	Reconfigurable systems, protein identification, string matching, hardware-software codesign, finite state machines
Depositing User:	Symplectic Admin
Date Deposited:	16 Jan 2017 10:55
Last Modified:	19 Jan 2023 07:20
DOI:	10.1109/EMBC.2016.7591227
Related URLs:	Author Publisher
URI:	https://livrepository.liverpool.ac.uk/id/eprint/3005218