CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber

V. Raghavan, Scott E. Whitney, Ryan J. Ebmeier, Nisha V. Padhye, Michael Nelson, Hendrik J Viljoen, George Gogos

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

In this paper, numerical analysis to investigate the thermal control of an innovative vortex tube based polymerase chain reaction thermocycler (VT-PCR) is described. VT-PCR is capable of rapid DNA amplification and real-time optical detection. The device rapidly cycles six 20 μL 96 bp λ-DNA samples between the PCR stages (denaturation, annealing and elongation) in approximately 6 minutes. Two-dimensional numerical simulations have been carried out using CFD software FLUENT v.6.2.16. Heat transfer rate (primarily dictated by the temperature differences between the samples and the external air heating or cooling them) governs the temperature distribution between and within the samples. Temperature variation between and within the samples during the denaturation stage has been quite uniform (maximum variation around ±0.5°C and 1.6°C, respectively). During cooling, by adjusting the cold release valves in the VT-PCR during some stage of cooling, the heat transfer rate has been controlled. Improved thermal control, which increases the efficiency of the PCR process, has been obtained by slightly decreasing the rate of cooling. Thus, almost uniform temperature distribution between and within the samples (within 1°C) has been attained for the annealing stage as well.

Original languageEnglish (US)
Title of host publicationCollection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings
Pages2365-2372
Number of pages8
StatePublished - Dec 21 2006
Event9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings - San Francisco, CA, United States
Duration: Jun 5 2006Jun 8 2006

Publication series

NameCollection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings
Volume4

Conference

Conference9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings
CountryUnited States
CitySan Francisco, CA
Period6/5/066/8/06

Fingerprint

Polymerase chain reaction
Computational fluid dynamics
Vortex flow
Cooling
Denaturation
Temperature distribution
DNA
Annealing
Heat transfer
Amplification
Numerical analysis
Elongation
Heating
Temperature
Hot Temperature
Computer simulation
Air

ASJC Scopus subject areas

  • Engineering(all)

Cite this

Raghavan, V., Whitney, S. E., Ebmeier, R. J., Padhye, N. V., Nelson, M., Viljoen, H. J., & Gogos, G. (2006). CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber. In Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings (pp. 2365-2372). (Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings; Vol. 4).

CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber. / Raghavan, V.; Whitney, Scott E.; Ebmeier, Ryan J.; Padhye, Nisha V.; Nelson, Michael; Viljoen, Hendrik J; Gogos, George.

Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings. 2006. p. 2365-2372 (Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings; Vol. 4).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Raghavan, V, Whitney, SE, Ebmeier, RJ, Padhye, NV, Nelson, M, Viljoen, HJ & Gogos, G 2006, CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber. in Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings. Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings, vol. 4, pp. 2365-2372, 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings, San Francisco, CA, United States, 6/5/06.
Raghavan V, Whitney SE, Ebmeier RJ, Padhye NV, Nelson M, Viljoen HJ et al. CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber. In Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings. 2006. p. 2365-2372. (Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings).
Raghavan, V. ; Whitney, Scott E. ; Ebmeier, Ryan J. ; Padhye, Nisha V. ; Nelson, Michael ; Viljoen, Hendrik J ; Gogos, George. / CFD analysis of thermal control in a vortex tube based polymerase chain reaction chamber. Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings. 2006. pp. 2365-2372 (Collection of Technical Papers - 9th AIAA/ASME Joint Thermophysics and Heat Transfer Conference Proceedings).
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