@article{oweida_yingling_2023, title={Resolving Structure of ssDNA in Solution by Fusing Molecular Simulations and Scattering Experiments with Machine Learning}, volume={9}, ISSN={["2513-0390"]}, url={https://doi.org/10.1002/adts.202300411}, DOI={10.1002/adts.202300411}, abstractNote={Abstract}, journal={ADVANCED THEORY AND SIMULATIONS}, author={Oweida, Thomas J. and Yingling, Yaroslava G.}, year={2023}, month={Sep} }
 @article{allen_wright_taylor_oweida_kader-pinky_patteson_bucci_cox_senthilvel_yingling_et al._2022, title={Mapping the Morphological Landscape of Oligomeric Di-block Peptide-Polymer Amphiphiles**}, volume={1}, ISSN={["1521-3773"]}, url={https://doi.org/10.1002/anie.202115547}, DOI={10.1002/anie.202115547}, abstractNote={Abstract}, journal={ANGEWANDTE CHEMIE-INTERNATIONAL EDITION}, publisher={Wiley}, author={Allen, Benjamin P. and Wright, Zoe M. and Taylor, Hailey F. and Oweida, Thomas J. and Kader-Pinky, Sabila and Patteson, Emily F. and Bucci, Kara M. and Cox, Caleb A. and Senthilvel, Abishec Sundar and Yingling, Yaroslava G. and et al.}, year={2022}, month={Jan} }
 @article{oweida_kim_donald_singh_yingling_2021, title={Assessment of AMBER Force Fields for Simulations of ssDNA}, volume={17}, ISSN={["1549-9626"]}, url={https://doi.org/10.1021/acs.jctc.0c00931}, DOI={10.1021/acs.jctc.0c00931}, abstractNote={Single-stranded DNA (ssDNA) plays an important role in biological processes and is used in DNA nanotechnology and other novel applications. Many important research questions can be addressed with molecular simulations of ssDNA molecules; however, no dedicated force field for ssDNA has been developed, and there is limited experimental information about ssDNA structures. This study assesses the accuracy and applicability of existing Amber force fields for all-atom simulations of ssDNA, such as ff99, bsc0, bsc1, and OL15, in implicit and explicit solvents via comparison to available experimental data, such as Forster resonance energy transfer and small angle X-ray scattering. We observed that some force fields agree better with experiments than others mainly due to the difference in parameterization of the propensity for hydrogen bonding and base stacking. Overall, the Amber ff99 force field in the IGB5 or IGB8 implicit solvent and the bsc1 force field in the explicit TIP3P solvent had the best agreement with experiment.}, number={2}, journal={JOURNAL OF CHEMICAL THEORY AND COMPUTATION}, publisher={American Chemical Society (ACS)}, author={Oweida, Thomas J. and Kim, Ho Shin and Donald, Johnny M. and Singh, Abhishek and Yingling, Yaroslava G.}, year={2021}, month={Feb}, pages={1208–1217} }