Mathematical modeling of DNA-mediated selective aggregation of CdS quantum dots

Taehoon Kim; Dongcheol Choe; Sang Woo Joo; So Yeong Lee; Kangtaek Lee

doi:10.1016/j.jcis.2010.03.057

Mathematical modeling of DNA-mediated selective aggregation of CdS quantum dots

Taehoon Kim, Dongcheol Choe, Sang Woo Joo, So Yeong Lee, Kangtaek Lee

Department of Chemical and Biomolecular Engineering

Research output: Contribution to journal › Article › peer-review

6 Citations (Scopus)

Abstract

We report a mathematical modeling of the DNA-mediated selective aggregation of CdS quantum dots. Addition of hybridized double-stranded DNAs into the suspensions of CdS quantum dots at the optimal salt concentration causes a selective aggregation and a fluorescence-quenching phenomenon depending on the target DNA sequence. We monitor the aggregation process with quasi-elastic light scattering (QELS), zeta potential, and conductivity measurements at different salt concentrations. To model the aggregation process, we use the constant-number Monte Carlo method with the aggregation kernel that accounts for the interparticle interaction from the classical DLVO model. We find that the calculated results are in good agreement with the experiments, and that the fractal dimension of the quantum dot aggregates is 2.3. Modeling also allows us to estimate that the total number of initial quantum dots in aggregates at the beginning of the fluorescence-quenching phenomenon is approximately 200. The insights gained in this study should be useful in the design of biosensors based on the fluorescence-quenching phenomenon caused by the quantum dot aggregation.

Original language	English
Pages (from-to)	209-214
Number of pages	6
Journal	Journal of Colloid and Interface Science
Volume	347
Issue number	2
DOIs	https://doi.org/10.1016/j.jcis.2010.03.057
Publication status	Published - 2010 Jul

Bibliographical note

Funding Information:
Funding from the Australian Research Council Centre of Excellence Scheme (Project Number CE 140100012) is gratefully acknowledged. G.G.W., M.F., and D.R.M. are grateful to the ARC for support under the Australian Laureate Fellowship scheme FL110100196, FL110100013, and FL120100019 respectively. The authors thank the Australian National Fabrication Facility (ANFF)-Materials Node and the UoW Electron Microscopy Centre for equipment use. F.G.O. acknowledges funding from the Office of Naval Research (N00014-13-1-0596).

Funding Information:
The Australian Research Council Centre of Excellence Scheme (Project Number CE 140100012) is gratefully acknowledged. G.G.W., M.F., and D.R.M. are grateful to the ARC for support under the Australian Laureate Fellowship scheme FL110100196, FL110100013, and FL120100019 respectively. The authors thank the Australian National Fabrication Facility (ANFF)-Materials Node and the UoW Electron Microscopy Centre for equipment use. F.G.O. acknowledges funding from the Office of Naval Research (N00014-13-1-0596).

All Science Journal Classification (ASJC) codes

Electronic, Optical and Magnetic Materials
Biomaterials
Surfaces, Coatings and Films
Colloid and Surface Chemistry

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10.1016/j.jcis.2010.03.057

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title = "Mathematical modeling of DNA-mediated selective aggregation of CdS quantum dots",

abstract = "We report a mathematical modeling of the DNA-mediated selective aggregation of CdS quantum dots. Addition of hybridized double-stranded DNAs into the suspensions of CdS quantum dots at the optimal salt concentration causes a selective aggregation and a fluorescence-quenching phenomenon depending on the target DNA sequence. We monitor the aggregation process with quasi-elastic light scattering (QELS), zeta potential, and conductivity measurements at different salt concentrations. To model the aggregation process, we use the constant-number Monte Carlo method with the aggregation kernel that accounts for the interparticle interaction from the classical DLVO model. We find that the calculated results are in good agreement with the experiments, and that the fractal dimension of the quantum dot aggregates is 2.3. Modeling also allows us to estimate that the total number of initial quantum dots in aggregates at the beginning of the fluorescence-quenching phenomenon is approximately 200. The insights gained in this study should be useful in the design of biosensors based on the fluorescence-quenching phenomenon caused by the quantum dot aggregation.",

author = "Taehoon Kim and Dongcheol Choe and Joo, {Sang Woo} and Lee, {So Yeong} and Kangtaek Lee",

note = "Funding Information: Funding from the Australian Research Council Centre of Excellence Scheme (Project Number CE 140100012) is gratefully acknowledged. G.G.W., M.F., and D.R.M. are grateful to the ARC for support under the Australian Laureate Fellowship scheme FL110100196, FL110100013, and FL120100019 respectively. The authors thank the Australian National Fabrication Facility (ANFF)-Materials Node and the UoW Electron Microscopy Centre for equipment use. F.G.O. acknowledges funding from the Office of Naval Research (N00014-13-1-0596). Funding Information: The Australian Research Council Centre of Excellence Scheme (Project Number CE 140100012) is gratefully acknowledged. G.G.W., M.F., and D.R.M. are grateful to the ARC for support under the Australian Laureate Fellowship scheme FL110100196, FL110100013, and FL120100019 respectively. The authors thank the Australian National Fabrication Facility (ANFF)-Materials Node and the UoW Electron Microscopy Centre for equipment use. F.G.O. acknowledges funding from the Office of Naval Research (N00014-13-1-0596).",

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N2 - We report a mathematical modeling of the DNA-mediated selective aggregation of CdS quantum dots. Addition of hybridized double-stranded DNAs into the suspensions of CdS quantum dots at the optimal salt concentration causes a selective aggregation and a fluorescence-quenching phenomenon depending on the target DNA sequence. We monitor the aggregation process with quasi-elastic light scattering (QELS), zeta potential, and conductivity measurements at different salt concentrations. To model the aggregation process, we use the constant-number Monte Carlo method with the aggregation kernel that accounts for the interparticle interaction from the classical DLVO model. We find that the calculated results are in good agreement with the experiments, and that the fractal dimension of the quantum dot aggregates is 2.3. Modeling also allows us to estimate that the total number of initial quantum dots in aggregates at the beginning of the fluorescence-quenching phenomenon is approximately 200. The insights gained in this study should be useful in the design of biosensors based on the fluorescence-quenching phenomenon caused by the quantum dot aggregation.

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Mathematical modeling of DNA-mediated selective aggregation of CdS quantum dots

Abstract

Bibliographical note

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