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Publications

A full list of publications (and many reprints) are available for articles prior to 2008 through this link.


Publications 2008 --

G.C. Rollins. A.S. Petrov and S.C. Harvey, “The Role of DNA Twist in the Packaging of Viral Genomes,” Biophys. J. 94, L38-L40 (2008) doi:10.1529/biophysj.107.126698.

A.S. Petrov and S.C. Harvey, “Packaging Double-Helical DNA into Viral Capsids: Structures, Forces and Energetics,” Biophys J. 95, 497-502 (2008) doi:10.1529/biophysj.108.131797.

R. K.-Z. Tan, B. Devkota and S.C. Harvey, “YUP.SCX: Coaxing Atomic Models into Medium Resolution Electron Density Maps,” J. Struct. Biol. 163, 163-174 (2008) doi:10.1016/j.jsb.2008.05.001.

T. Sarkar, A. Petrov, J.R. Vitko, S.C. Harvey, I. Mukerji and N.V. Hud, “Integration Host Factor (IHF) Dictates the Structure of Polyamine-DNA Condensates: Implications for the Role of IHF in the Compaction of Bacterial Chromatin,” Biochemistry 48, 667-675 (2009) PMID: 19132923.

B. Devkota, A. Petrov, S. Lemieux, M.B. Boz, L. Tang, A. Schneemann, J.E. Johnson and S.C. Harvey, “Structural and Electrostatic Characterization of Pariacoto Virus: Implications for Viral Assembly,” Biopolymers 91, 530-538 (2009) doi:10.1002/bip.21168.

A.S. Petrov, C.R. Locker and S.C. Harvey, “Characterization of DNA Conformation Inside Bacteriophages,” Phys Rev. E. 80, 021914 (2009) doi:10.1103/PhysRevE.80.021914.

D.J. Taylor, B. Devkota, A.D. Huang, M. Topf, E. Narayanan, A. Sali, S.C. Harvey and J. Frank, “Comprehensive Molecular Structure of the Eukaryotic Ribosome,” Structure 17, 1591-1604 (2009) PMID: 20004163.

S.C. Harvey, A.S. Petrov, B. Devkota and M.B. Boz, “Viral Assembly: A Molecular Modeling Perspective,” Phys. Chem. Chem. Phys. 11, 10553-10564 (2009) doi:10.1039/B912884K.

S.C. Harvey, A.S. Petrov, B. Devkota and M.B. Boz, “Computational Approaches to Modeling Viral Structure and Assembly,” Methods Enzymol. 487, 513-543 (2011) PMID: 21187237.

A.S. Petrov, J. Bowman, S.C. Harvey and L.D. Williams, “On the Origin of the Special Role of Magnesium in RNA Folding,” RNA 17, 291-297 (2011) PMID: 21173199.

A.S. Petrov and S.C. Harvey, “Role of DNA-DNA Interactions on the Structure and Thermodynamics of Bacteriophages Lambda and P4,” J. Struct. Biol. 174, 137-146 (2011) PMID: 21074621.

J.J. Gossett and S.C. Harvey, “Computational Screening and Design of DNA-Linked Molecular Nanowires,” Nano Letters 11:604-608 (2011) PMID: 21174452.

W. Chen, J. Lou, J. Hsin, K. Schulten, S.C. Harvey and C. Zhu, “Molecular Dynamics Simulations of Forced Unbending of Integrin αVβ3,” PLoS Comput Biol e1001086 (2011) PMID: 21379327.

S.S. Athavale, J.J. Gossett, C. Hsiao, J.C. Bowman, E. O’Neill, E. Hershkovitz, T. Preeprem, N.V. Hud, R.M. Wartell, S.C. Harvey and L.D. Williams, “Domain Structure of the Ribosomal Large Subunit: Domain III of the Thermus thermophilus 23S Ribosomal RNA Folds Independently,” RNA (in press)..