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

K. Qamhieh, Bernard Pettitt

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

1 Citation (Scopus)

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 languageEnglish (US)
Title of host publication4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014
PublisherAmerican Institute of Physics Inc.
Volume1653
ISBN (Electronic)9780735412958
DOIs
StatePublished - Mar 30 2015
Event4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014 - Fethiye, Turkey
Duration: Apr 24 2014Apr 27 2014

Other

Other4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014
CountryTurkey
CityFethiye
Period4/24/144/27/14

Fingerprint

deoxyribonucleic acid
electrostatics
oligonucleotides
probes
electric fields
nucleic acids
charts
genes
delivery
isotherms
drugs
adsorption

Keywords

  • DNA Hybridization
  • Linker
  • Microarrays
  • probes
  • surface Electrostatic

ASJC Scopus subject areas

  • Physics and Astronomy(all)

Cite this

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.. https://doi.org/10.1063/1.4914281

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 proceedingConference 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
Qamhieh K, Pettitt B. 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. American Institute of Physics Inc. 2015. 020090 https://doi.org/10.1063/1.4914281
Qamhieh, K. ; Pettitt, Bernard. / Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics. 4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014. Vol. 1653 American Institute of Physics Inc., 2015.
@inproceedings{4d0e9a8b41c24b9e85f4854a4492a3eb,
title = "Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics",
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.",
keywords = "DNA Hybridization, Linker, Microarrays, probes, surface Electrostatic",
author = "K. Qamhieh and Bernard Pettitt",
year = "2015",
month = "3",
day = "30",
doi = "10.1063/1.4914281",
language = "English (US)",
volume = "1653",
booktitle = "4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014",
publisher = "American Institute of Physics Inc.",

}

TY - GEN

T1 - Controlling microarray DNA hybridization efficiency by probe-surface distance and external surface electrostatics

AU - Qamhieh, K.

AU - Pettitt, Bernard

PY - 2015/3/30

Y1 - 2015/3/30

N2 - 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.

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.

KW - DNA Hybridization

KW - Linker

KW - Microarrays

KW - probes

KW - surface Electrostatic

UR - http://www.scopus.com/inward/record.url?scp=85042806329&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85042806329&partnerID=8YFLogxK

U2 - 10.1063/1.4914281

DO - 10.1063/1.4914281

M3 - Conference contribution

AN - SCOPUS:85042806329

VL - 1653

BT - 4th International Congress in Advances in Applied Physics and Materials Science, APMAS 2014

PB - American Institute of Physics Inc.

ER -