Steven Plotkin

2017

Habibi, Mona, Joerg Rottler, and Steven S. Plotkin. "As Simple as Possible but not Simpler: On the Reliability of Protein Coarse-Grained Models." Biophysical Journal 112, no. 3 (2017): 176a.
Habibi, Mona, Jörg Rottler, and Steven S. Plotkin. "The unfolding mechanism of monomeric mutant SOD1 by simulated force spectroscopy." Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics (2017).

2016

Habibi, Mona, Joerg Rottler, and Steven S. Plotkin. "Simulated Force Spectroscopy of a Badly-Behaved Protein: on the Reliability of Protein Coarse-Grained Models." Biophysical Journal 110, no. 3 (2016): 393a.
Habibi, Mona, Jörg Rottler, and Steven S. Plotkin. "As Simple As Possible, but Not Simpler: Exploring the Fidelity of Coarse-Grained Protein Models for Simulated Force Spectroscopy." PLoS computational biology 12, no. 11 (2016): e1005211.
Plotkin, Steven S., Xubiao Peng, Judith M. Silverman, and Neil R. Cashman. "A COMPUTATIONAL METHOD TO PREDICT DISEASE-SPECIFIC EPITOPES IN Aβ, AND ITS APPLICATION TO OLIGOMER-SELECTIVE ANTIBODIES FOR ALZHEIMER’S IMMUNOTHERAPY." Alzheimer's & Dementia: The Journal of the Alzheimer's Association 12, no. 7 (2016): P1148.
Peng, Xubiao, Will C. Guest, Neil R. Cashman, and Steven S. Plotkin. "A Simple Method for Predicting Cancer Specific Cell Surface Epitopes." Biophysical Journal 110, no. 3 (2016): 326a.
Cashman, Neil R., Steven S. Plotkin, and William C. Guest. Methods and systems for predicting misfolded protein epitopes. Google Patents, 2016.
Mills, Eric A., and Steven S. Plotkin. "Classical Density Functional Theory for Implicit Solvent Simulations." Biophysical Journal 110, no. 3 (2016): 524a.

2015

Mills, Eric A., and Steven S. Plotkin. "Protein transfer free energy obeys entropy-enthalpy compensation." The Journal of Physical Chemistry B 119, no. 44 (2015): 14130-14144.

2014

Chen, Si, Donald M. Witt, and Steven S. Plotkin. "Quantizing models of (2+ 1)-dimensional gravity on non-orientable manifolds." Classical and Quantum Gravity 31, no. 5 (2014): 055008.
Grad, Leslie I., Justin J. Yerbury, Bradley J. Turner, William C. Guest, Edward Pokrishevsky, Megan A. O’Neill, Anat Yanai, Judith M. Silverman, Rafaa Zeineddine, Lisa Corcoran et al. "Intercellular propagated misfolding of wild-type Cu/Zn superoxide dismutase occurs via exosome-dependent and-independent mechanisms." Proceedings of the National Academy of Sciences 111, no. 9 (2014): 3620-3625.
Uger, Marni D., William C. Guest, Apar Pataer, Li Li, Viengthong Chai, Veronica Ciolfi, Hui Chen, Ewa Plawinski, Tapfuma Mutukura, Andrew Sage et al. "O. 16: Amf-1c-120: An antibody specific for misfolded prion protein recognizes ovarian and lung cancer cells but not normal cells." Prion 8 (2014): 19.

2013

Mills, Eric A., and Steven S. Plotkin. "Density Functional Theory for Protein Transfer Free Energy." The Journal of Physical Chemistry B 117, no. 42 (2013): 13278-13290.
Uger, Marni D., Viengthong Chai, Veronica Ciolfi, Hui Chen, Ewa Plawinski, Tapfuma Mutukura, Andrew Sage, Ryan Demers, Leo Lau, Pierre Lee et al. AMF-1c-120: an antibody specific for misfolded prion protein expressed on ovarian cancer cells.. AACR, 2013.
Plotkin, Steven Samuel, Neil R. Cashman, and Atanu Das. "Computational prediction of ALS patient survival times from protein mechanical properties." Biophysical Journal 104, no. 2 (2013): 577a.
Das, Atanu, and Steven S. Plotkin. "SOD1 exhibits allosteric frustration to facilitate metal binding affinity." Proceedings of the National Academy of Sciences 110, no. 10 (2013): 3871-3876.
Grad, Leslie I., Justin J. Yerbury, Bradley J. Turner, Will C. Guest, Eddie Pokrishevsky, Megan A. O'Neill, Anat Yanai, Judith M. Silverman, Rafaa Zeineddine, Lisa Corcoran et al. "Intercellular propagated misfolding of wild-type Cu-zn superoxide dismutase." Prion 7 (2013): 76.
Das, Atanu, and Steven S. Plotkin. "Mechanical probes of SOD1 predict systematic trends in metal and dimer affinity of ALS-associated mutants." Journal of molecular biology 425, no. 5 (2013): 850-874.
Das, A., B. K. Sin, A. R. Mohazab, and S. S. Plotkin. "Unfolded protein ensembles, folding trajectories, and refolding rate prediction." The Journal of chemical physics 139, no. 12 (2013): 09B625_1.
Mohazab, Ali R., and Steven S. Plotkin. "Polymer uncrossing and knotting in protein folding, and their role in minimal folding pathways." PloS one 8, no. 1 (2013): e53642.
Chen, Si, and Steven S. Plotkin. "Statistical mechanics of graph models and their implications for emergent spacetime manifolds." Physical Review D 87, no. 8 (2013): 084011.
Plotkin, Steven S., Neil R. Cashman, and Atanu Das. "Prediction of Familial Als Patient Survival Times." Protein Science 22 (2013): 185.

2012

Plotkin, Steven Samuel, Neil R. Cashman, Atanu Das, and Will Guest. "Template-Directed Protein Misfolding in Silico and in the Cell." Biophysical Journal 102, no. 3 (2012): 474a.

2011

Guest, W. C., N. R. Cashman, and S. S. Plotkin. "A theory for the anisotropic and inhomogeneous dielectric properties of proteins." Phys. Chem. Chem. Phys. 13 (2011): 6286-6295.
Hadizadeh, Shirin, Apichart Linhananta, and Steven S. Plotkin. "Improved Measures for the Shape of a Disordered Polymer To Test a Mean-Field Theory of Collapse." Macromolecules 44 (2011): 6182-6197.
Guest, Will C., Steven S. Plotkin, and Neil R. Cashman. "Toward a Mechanism of Prion Misfolding and Structural Models of PrPSc: Current Knowledge and Future Directions." Journal of Toxicology and Environmental Health, Part A 74 (2011): 154-160.
Grad, Leslie I., Will C. Guest, Anat Yanai, Edward Pokrishevsky, Megan A. O'Neill, Ebrima Gibbs, Valentyna Semenchenko, Masoud Yousefi, David S. Wishart, Steven S. Plotkin et al. "Intermolecular transmission of superoxide dismutase 1 misfolding in living cells." Proceedings of the National Academy of Sciences 108 (2011): 16398-16403.

2010

Guest, W., N. R. Cashman, and S. S. Plotkin. "Electrostatics in the Stability and Misfolding of the Prion Protein: Salt Bridges, Self-Energy, and Solvation." Biochem. Cell Biol. 88 (2010): 371-381.
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