Reconfigurable hardware-software codesign methodology for protein identification

Venkateshwarlu Y. Gudur, Sandeep Thallada, Abhinay R. Deevi, Venkata Krishna Gande, Amit Acharyya, Vasundhra Bhandari, Paresh Sharma, Saqib Khursheed, Ganesh R. Naik

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

2 Citations (Scopus)

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.

Original languageEnglish
Title of host publication2016 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)
Place of PublicationFlorida
PublisherIEEE
Pages2456-2459
Number of pages4
ISBN (Electronic)9781457702204
ISBN (Print)9781457702198
DOIs
Publication statusPublished - 18 Oct 2016
Externally publishedYes
Event38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2016 - Orlando, United States
Duration: 16 Aug 201620 Aug 2016

Publication series

NameProceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
Volume2016-October
ISSN (Print)1557-170X

Conference

Conference38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2016
CountryUnited States
CityOrlando
Period16/08/1620/08/16

Keywords

  • Finite state machines
  • Hardware-software codesign
  • Protein identification
  • Reconfigurable systems
  • String matching

Fingerprint Dive into the research topics of 'Reconfigurable hardware-software codesign methodology for protein identification'. Together they form a unique fingerprint.

Cite this