Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics

K. Qamhieh; Bernard Pettitt

doi:10.1063/1.4914281

Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics

K. Qamhieh, Bernard Pettitt

Biochemistry & Molecular Biology

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

3 Scopus citations

Abstract

DNA microarrays are analytical devices designed to determine the composition of multicomponent solutions of nucleic acids, DNA or RNA. These devices are promising technology for diverse applications, including sensing, diagnostics, and drug/gene delivery. Here, we modify a hybridization adsorption isotherm to study the effects of probe-surface distance and the external electrostatic fields, on the oligonucleotide hybridization in microarray and how these effects are varies depending on surface probe density and target concentration. This study helps in our understanding on-surface hybridization mechanisms, and from it we can observe a significant effect of the probe-surface distance, and the external electrostatic fields, on the hybridization yield. In addition we present a simple new criteria to control the oligonucleotide hybridization efficiency by providing a chart illustrating the effects of all factors on the DNA-hybridization efficiency.

Original language	English (US)
Title of host publication	4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014
Publisher	American Institute of Physics Inc.
Volume	1653
ISBN (Electronic)	9780735412958
DOIs	https://doi.org/10.1063/1.4914281
State	Published - Mar 30 2015
Event	4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014 - Fethiye, Turkey Duration: Apr 24 2014 → Apr 27 2014

Other

Other	4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014
Country/Territory	Turkey
City	Fethiye
Period	4/24/14 → 4/27/14

Keywords

DNA Hybridization
Linker
Microarrays
probes
surface Electrostatic

ASJC Scopus subject areas

Physics and Astronomy(all)

Access to Document

10.1063/1.4914281

Cite this

Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics. / Qamhieh, K.; Pettitt, Bernard.
4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014. Vol. 1653 American Institute of Physics Inc., 2015. 020090.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Qamhieh, K & Pettitt, B 2015, Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics. in 4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014. vol. 1653, 020090, American Institute of Physics Inc., 4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014, Fethiye, Turkey, 4/24/14. https://doi.org/10.1063/1.4914281

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AB - DNA microarrays are analytical devices designed to determine the composition of multicomponent solutions of nucleic acids, DNA or RNA. These devices are promising technology for diverse applications, including sensing, diagnostics, and drug/gene delivery. Here, we modify a hybridization adsorption isotherm to study the effects of probe-surface distance and the external electrostatic fields, on the oligonucleotide hybridization in microarray and how these effects are varies depending on surface probe density and target concentration. This study helps in our understanding on-surface hybridization mechanisms, and from it we can observe a significant effect of the probe-surface distance, and the external electrostatic fields, on the hybridization yield. In addition we present a simple new criteria to control the oligonucleotide hybridization efficiency by providing a chart illustrating the effects of all factors on the DNA-hybridization efficiency.

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Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics

Abstract

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Keywords

ASJC Scopus subject areas

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