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Probing DNA Dynamics with Fluorescence Cross-Correlation Spectroscopy

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dc.contributor.advisor Strey, Helmut H en_US
dc.contributor.author Bakowski, Tomasz en_US
dc.contributor.other Department of Biomedical Engineering en_US
dc.date.accessioned 2017-09-20T16:51:36Z
dc.date.available 2017-09-20T16:51:36Z
dc.date.issued 2015-12-01
dc.identifier.uri http://hdl.handle.net/11401/76986 en_US
dc.description 120 pgs en_US
dc.description.abstract DNA Polymer dynamics are fundamental to the function of biological systems. Examples include gene regulation, cell division, threading and transport through pores. We address the limitations of previous experimental studies of polymer dynamics by designing, building, and characterizing a novel, custom Fluorescence Cross-Correlation Spectroscopy (FCCS) system. We detail the optical considerations for quantitatively describing and shaping the confocal volume. The hardware is supplemented by a robust theoretical foundation of correlation analysis and how it applies to polymer dynamics. We carry this theory through in the design of novel fitting methods and software. We utilize our FCCS setup to quantitatively measure important polymer dynamics of DNA in solution, such as diffusion coefficients and relaxation time, both more carefully and at lower molecular weights than typically accessible by single color FCS or standard fluorescence microscopy. By establishing a well-characterized FCCS measurement platform and detailing its functionality and applicability to polymer dynamics, we lay the foundation to applying our system to further measurements within nano-confinement. A detailed nanofabrication approach is provided. Better understanding internal polymer dynamics under nano-confinement has significant potential applications in designing more robust molecular separations technologies as well as the ability to address fundamental research questions in biophysics and molecular biology. en_US
dc.description.sponsorship This work is sponsored by the Stony Brook University Graduate School in compliance with the requirements for completion of degree. en_US
dc.format Monograph en_US
dc.format.medium Electronic Resource en_US
dc.language.iso en_US en_US
dc.publisher The Graduate School, Stony Brook University: Stony Brook, NY. en_US
dc.subject.lcsh Biomedical engineering en_US
dc.subject.other DNA, FCCS, FCS, Fluorescence Correlation Spectroscopy, Optics, Polymer en_US
dc.title Probing DNA Dynamics with Fluorescence Cross-Correlation Spectroscopy en_US
dc.type Dissertation en_US
dc.mimetype Application/PDF en_US
dc.contributor.committeemember Entcheva, Emilia en_US
dc.contributor.committeemember Liu, Jonathan en_US
dc.contributor.committeemember Cotlet, Mircea en_US

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