- Sequence-Dependent Geometric Modeling of Fluctuations of DNA
- Project Year:
2022
- REU Student (s):
Travis Pence | University of South Carolina-Columbia SC
- Student 1 Institution:
University of South Carolina-Columbia
- Project Mentor:
Wilma Olson
- Project Mentor Area:
Chemistry and Chemical Biology
- Project Abstract:
DNA minicircles of base pair length 336 have recently been used to inject genes into mice. The step-parameter model describes a DNA strand's configuration in space and is packaged into the software emDNA, which currently finds the minimal energy state for an input sequence. This project expands upon emDNA and adds the emDNA-move tool, allowing for the thermal fluctuation of constrained linear or circular sequences of DNA. This tool was developed in C++ and allows for the customization of the degree of random movement and fluctuation length. This project also compares the deformability of each unique tetramer and the coupling of step parameters.
