Automation of DNA computing readout method based on real-time PCR implemented on DNA engine opticon 2 system

Muhammad Faiz Mohamed Saaid, Ismail Ibrahim, Shahdan Sudin, Mohd Saberi Mohamad, Zulkifli Md Yusof, Jameel Abdulla Ahmed Mukred, Kamal Khalil, Zuwairie Ibrahim, Junzo Watada

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)

Abstract

Previously, an automation of a DNA computing readout method for the Hamiltonian Path Problem (HPP) has been implemented based on LightCycler System. In this study, a similar readout approach is implemented based on DNA Engine Opticon 2 System. The readout approach consists of two steps: real-time amplification in vitro using TaqMan-based real-time PCR, followed by an in silico phase. The in silico phase consists of a data clustering algorithm and an information processing to extract the Hamiltonian path after the TaqMan \YES and \NO reactions have been identified. The result indicates that the automation of DNA computing readout method can be efficiently implemented on DNA Engine Opticon 2 System.

Original languageEnglish
Pages (from-to)1907-1916
Number of pages10
JournalInternational Journal of Innovative Computing, Information and Control
Volume8
Issue number3 A
Publication statusPublished - Mar 2012
Externally publishedYes

Keywords

  • Dna computing
  • Hamiltonian path problem
  • Real-time PCR

ASJC Scopus subject areas

  • Software
  • Theoretical Computer Science
  • Information Systems
  • Computational Theory and Mathematics

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