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Fostering new paradigms for the biological sciences

JONATHAN WHITMER

Chemical & Biological Engineering

Faculty Advisor: Juan de Pablo

jwhitmer@wisc.edu


Phone: 608-262-2448

Whitmer_CV
 

Recent developments in DNA sequencing have shown the promise of direct single-molecule analyses. Many such methods rely on the ability to stretch DNA molecule, where hydrodynamic flows and microchannel confinement may be utilized. I am interested in elucidating the mechanical and thermodynamic effects facilitating DNA elongation through the use of simulations.


As DNA is a highly charged, complicated molecule, study of large-scale effects is facilitated by coarse-graining into a more simple mesoscopic description. I am currently developing coarse-grained models for use in the study of DNA both in bulk solution and in confinement.


Additionally, the self-assembly of DNA-nanoparticle conjugates has shown to be a useful method for the selection and design of self-assembled nanoparticle superstructures. I am further interested in understanding the dynamic and thermodynamic limits to using DNA hybridization, among other self-assembly methods, to assemble macroscopic superstructures of nanoparticles and colloids.

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