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Samuel S. Cho, Ph.D. - Publications

Affiliations: 
2001-2007 Chemistry University of California, San Diego, La Jolla, CA 
 2007-2010 Institute for Physical Science and Technology University of Maryland, College Park, College Park, MD 
 2010- Physics and Computer Science Wake Forest University, Winston-Salem, NC, United States 
Area:
protein folding, regulatory networks, glasses, many-body phenomena
Website:
http://www.wfu.edu/~choss/
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30 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Kuczynski CE, Porada CD, Atala A, Cho SS, Almeida-Porada G. Evaluating sheep hemoglobins with MD simulations as an animal model for sickle cell disease. Scientific Reports. 14: 276. PMID 38168584 DOI: 10.1038/s41598-023-50707-y  0.563
2023 Cho SS, Green AT, Hyeon C, Thirumalai D. TMAO Destabilizes RNA Secondary Structure via Direct Hydrogen Bond Interactions. The Journal of Physical Chemistry. B. PMID 36602908 DOI: 10.1021/acs.jpcb.2c05434  0.553
2016 Nelson L, Cho S, Kim-Shapiro D. Computational and Experimental Study of Neuroglobin and Carbon Monoxide Biophysical Journal. 110: 538a. DOI: 10.1016/J.Bpj.2015.11.2881  0.318
2016 Cho SS. Computational and Experimental Characterization of Ribosomal DNA and RNA G-Quadruplexes Biophysical Journal. 110: 566a. DOI: 10.1016/J.Bpj.2014.11.1280  0.351
2015 Li R, Macnamara LM, Leuchter JD, Alexander RW, Cho SS. MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and Allostery. International Journal of Molecular Sciences. 16: 15872-902. PMID 26184179 DOI: 10.3390/Ijms160715872  0.381
2015 Nicholson B, Green A, Cho S. Quantifying the Stability of Acridines to Ribosomal G-Quadruplexes Biophysical Journal. 108. DOI: 10.1016/J.Bpj.2014.11.2162  0.32
2014 Green AT, Cho S. Validation and Physical Characterization of Ribosomal G-Quadruplexes with MD Simulations Biophysical Journal. 106: 64a. DOI: 10.1016/J.Bpj.2013.11.432  0.368
2014 Leuchter JD, Green AT, Gilyard J, Rambarat CG, Cho SS. Coarse-Grained and Atomistic MD Simulations of RNA and DNA Folding Israel Journal of Chemistry. 54: 1152-1164. DOI: 10.1002/Ijch.201400022  0.43
2013 Li R, Chen R, Chen P, Wen Y, Ke PC, Cho SS. Computational and experimental characterizations of silver nanoparticle-apolipoprotein biocorona. The Journal of Physical Chemistry. B. 117: 13451-6. PMID 24073791 DOI: 10.1021/Jp4061158  0.318
2013 Li R, Ge HW, Cho SS. Sequence-dependent base-stacking stabilities guide tRNA folding energy landscapes. The Journal of Physical Chemistry. B. 117: 12943-52. PMID 23841777 DOI: 10.1021/Jp402114P  0.436
2012 Koculi E, Cho SS, Desai R, Thirumalai D, Woodson SA. Folding path of P5abc RNA involves direct coupling of secondary and tertiary structures. Nucleic Acids Research. 40: 8011-20. PMID 22641849 DOI: 10.1093/Nar/Gks468  0.585
2011 Biyun S, Cho SS, Thirumalai D. Folding of human telomerase RNA pseudoknot using ion-jump and temperature-quench simulations. Journal of the American Chemical Society. 133: 20634-43. PMID 22082261 DOI: 10.1021/Ja2092823  0.579
2011 Cho SS, Reddy G, Straub JE, Thirumalai D. Entropic stabilization of proteins by TMAO. The Journal of Physical Chemistry. B. 115: 13401-7. PMID 21985427 DOI: 10.1021/Jp207289B  0.585
2011 Patro R, Ip CY, Bista S, Thirumalai D, Cho SS, Varshney A. MDMap: A system for data-driven layout and exploration of molecular dynamics simulations Ieee Symposium On Biological Data Visualization 2011, Biovis 2011 - Proceedings. 111-118. DOI: 10.1109/BioVis.2011.6094055  0.466
2009 Lenz P, Cho SS, Wolynes PG. Analysis of single molecule folding studies with replica correlation functions. Chemical Physics Letters. 471: 310-314. PMID 20161316 DOI: 10.1016/J.Cplett.2009.02.054  0.531
2009 Cho SS, Pincus DL, Thirumalai D. Assembly mechanisms of RNA pseudoknots are determined by the stabilities of constituent secondary structures. Proceedings of the National Academy of Sciences of the United States of America. 106: 17349-54. PMID 19805055 DOI: 10.1016/J.Bpj.2009.12.2573  0.591
2009 Cho SS, Levy Y, Wolynes PG. Quantitative criteria for native energetic heterogeneity influences in the prediction of protein folding kinetics. Proceedings of the National Academy of Sciences of the United States of America. 106: 434-9. PMID 19075236 DOI: 10.1073/Pnas.0810218105  0.57
2009 Cho S, Thirumalai D. TMAO and Solvent Exposed RNA Bases Stabilizes Unfolded State via Hydrogen Bonding Biophysical Journal. 96: 576a. DOI: 10.1016/J.Bpj.2008.12.3009  0.53
2008 Pincus DL, Cho SS, Hyeon C, Thirumalai D. Minimal models for proteins and RNA from folding to function. Progress in Molecular Biology and Translational Science. 84: 203-50. PMID 19121703 DOI: 10.1016/S0079-6603(08)00406-6  0.705
2008 Cho SS, Weinkam P, Wolynes PG. Origins of barriers and barrierless folding in BBL. Proceedings of the National Academy of Sciences of the United States of America. 105: 118-23. PMID 18172203 DOI: 10.1073/Pnas.0709376104  0.747
2007 Ferreiro DU, Cervantes CF, Truhlar SM, Cho SS, Wolynes PG, Komives EA. Stabilizing IkappaBalpha by "consensus" design. Journal of Molecular Biology. 365: 1201-16. PMID 17174335 DOI: 10.1016/J.Jmb.2006.11.044  0.693
2006 Cho SS, Levy Y, Wolynes PG. P versus Q: structural reaction coordinates capture protein folding on smooth landscapes. Proceedings of the National Academy of Sciences of the United States of America. 103: 586-91. PMID 16407126 DOI: 10.1073/Pnas.0509768103  0.547
2005 Ferreiro DU, Cho SS, Komives EA, Wolynes PG. The energy landscape of modular repeat proteins: topology determines folding mechanism in the ankyrin family. Journal of Molecular Biology. 354: 679-92. PMID 16257414 DOI: 10.1016/J.Jmb.2005.09.078  0.725
2005 Cho SS, Levy Y, Onuchic JN, Wolynes PG. Overcoming residual frustration in domain-swapping: the roles of disulfide bonds in dimerization and aggregation. Physical Biology. 2: S44-55. PMID 16204848 DOI: 10.1088/1478-3975/2/2/S05  0.534
2005 Levy Y, Cho SS, Shen T, Onuchic JN, Wolynes PG. Symmetry and frustration in protein energy landscapes: a near degeneracy resolves the Rop dimer-folding mystery. Proceedings of the National Academy of Sciences of the United States of America. 102: 2373-8. PMID 15701699 DOI: 10.1073/Pnas.0409572102  0.574
2005 Levy Y, Cho SS, Onuchic JN, Wolynes PG. A survey of flexible protein binding mechanisms and their transition states using native topology based energy landscapes. Journal of Molecular Biology. 346: 1121-45. PMID 15701522 DOI: 10.1016/J.Jmb.2004.12.021  0.553
2004 Wymore T, Hempel J, Cho SS, Mackerell AD, Nicholas HB, Deerfield DW. Molecular recognition of aldehydes by aldehyde dehydrogenase and mechanism of nucleophile activation. Proteins. 57: 758-71. PMID 15390260 DOI: 10.1002/Prot.20256  0.583
2004 Yang S, Cho SS, Levy Y, Cheung MS, Levine H, Wolynes PG, Onuchic JN. Domain swapping is a consequence of minimal frustration. Proceedings of the National Academy of Sciences of the United States of America. 101: 13786-91. PMID 15361578 DOI: 10.1073/Pnas.0403724101  0.653
2003 Pan Y, Huang N, Cho S, MacKerell AD. Consideration of molecular weight during compound selection in virtual target-based database screening Journal of Chemical Information and Computer Sciences. 43: 267-272. PMID 12546562 DOI: 10.1021/Ci020055F  0.458
2001 Izaguirre G, Pietruszko R, Cho S, MacKerell A. Human aldehyde dehydrogenase catalytic activity and structural interactions with coenzyme analogs. Journal of Biomolecular Structure & Dynamics. 19: 429-47. PMID 11790142 DOI: 10.1080/07391102.2001.10506752  0.515
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