Publication list of Sachin Goyal

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Refereed Papers:

Goyal, S., N.C. Perkins and J.C. Meiners, 2007, “Resolving the Sequence-Dependent Stiffness of DNA using Cyclization Experiments and a Computational Rod Model”, In press in ASME Journal of Computational and Nonlinear Dynamics (Will also be presented in ASME IDETC'07 in Las Vegas).

Lillian, T., N.C. Perkins and S. Goyal, 2007, “Computational Elastic Rod Model Applied to DNA Looping”, CD-ROM Proceedings of ASME Design Engineering Technical Conference: 6th International Conference on Multibody Systems, Nonlinear Dynamics, and Control, MSNDC-2, a New Session on Molecular Dynamics Simulations: Methods and Applications, Las Vegas, NV.

Goyal, S., N.C. Perkins and C.L. Lee, 2007, “Nonlinear Dynamic Intertwining of Rods with Self-contact”, Submitted in Feb, 2007 to International Journal of Nonlinear Mechanics. [PDF]

Goyal, S., T. Lillian, S. Blumberg, J. C. Meiners, E. Meyhöfer and N. C. Perkins, 2007, “Sequence-Dependent Inter-Operator Curvature Influences LacR-Mediated DNA Looping”, In press in Biophysical Journal. [PDF]

Goyal, S., N.C. Perkins and C.L. Lee, 2005, “Nonlinear Dynamics and Loop Formation in Kirchhoff Rods with Implications to the Mechanics of DNA and Cables”, Journal of Computational Physics, vol. 209, pp. 371-389. [Abstract]

Goyal, S. and N.C. Perkins, 2005, “A Hybrid Rod-Catenary Model to Simulate Nonlinear Dynamics of Cables with Low and High Tension Zones”, Proceedings of ASME DETC: 5th International Conference on Multibody Systems, Nonlinear Dynamics, and Control, vol. 6 C, pp. 1691-1698. (Presented by Goyal, S.) [Abstract]

Goyal, S. , T. Lillian, N.C. Perkins and E. Meyhöfer, 2005, “Cable dynamics applied to long-length scale mechanics of DNA”, CD-ROM Proceedings of Sixth International Symposium on Cable Dynamics, Charleston, SC. (Keynote Speech by N.C. Perkins) [PDF]

Goyal, S. and N.C. Perkins, 2005, “Modeling of Cables with High and Low Tension Zones using a Hybrid Rod-Catenary Formulation”, CD-ROM Proceedings of Sixth International Symposium on Cable Dynamics, Charleston, SC. (Presented by Goyal, S.) [PDF]

Goyal, S., N.C. Perkins and C.L. Lee, 2003, “Torsional buckling and writhing dynamics of elastic cables and DNA”, Proceedings of ASME DETC: 19th Biennial Conference on Mechanical Vibration and Noise, 2003, vol. 5 A, pp. 183-191. (Presented by Goyal, S.) [Abstract]

Goyal, S., N.C. Perkins and C.L. Lee, 2003, “Writhing Dynamics of Cables with Self-contact”, Proceedings of Fifth International Symposium on Cable Dynamics, Santa Margherita Ligure, Italy, pp. 27-36. (Presented by Goyal, S.) [PDF]

Abstracts:

Wilson, D., T. Lillian, S. Goyal, N. C. Perkins, A. Tkachenko and J. C. Meiners, “Modeling Entropic Cost of DNA Looping”, Sept 4-7, 2007, Las Vegas, NV, ASME IDETC: 6th International Conference on Multibody Systems, Nonlinear Dynamics, and Control, MSNDC-2, a New Session on Molecular Dynamics Simulations: Methods and Applications. (Platform + Poster)

Goyal, S., A. Gramada and T. C. Bishop, “Development of a Coarse-Grain Model of the Nucleosome”, Jun 19-23, 2007, Albany Conversation 15. (Poster)

Goyal, S., T. Lillian, D. Wilson, E. Meyhofer, J. C. Meiners and N. C. Perkins, “Sensitivity of DNA Looping to Sequence-dependent Stiffness”, Mar 3-7, 2007, Baltimore, MD, Biophysical Journal. (Poster)

Lillian, T., S. Goyal, N. C. Perkins, J. C. Meiners and J. D. Kahn, “Computational rod theory predicts experimental characteristics of DNA looping by the Lac repressor”, Mar 3-7, 2007, Baltimore, MD, Biophysical Journal. (Poster)

Wilson, D., T. Lillian, S. Goyal, N. C. Perkins, A. Tkachenko and J. C. Meiners, “Modeling Entropic Cost of DNA Looping”, Mar 3-7, 2007, Baltimore, MD, Biophysical Journal. (Platform)

Goyal, S., T. Lillian, E. Meyhofer, J. C. Meiners and N. C. Perkins, “A Computational Rod Model to Simulate the Structural Mechanics of DNA”, ICAM workshop on Physics of cellular objects, Aug 14-26, 2006, Cargèse, France. (Poster)

Goyal, S. and N. C. Perkins, “Structural Modeling of DNA Loops in Lactose-Repressor”, Nonlinear Vibrations, Aug 13-17, 2006, Blacksburg, VA. (Presented by Goyal, S.) [PDF]

Goyal, S., T. Lillian, E. Meyhofer, J. C. Meiners and N. C. Perkins, “A Computational Rod Model to Simulate the Structural Mechanics of DNA”, Single Molecule Symposium, May 18-20, 2006, Ann Arbor, MI. (Poster)

Lillian, T., S. Goyal, E. Meyhofer, J. C. Meiners and N. C. Perkins, “Inter-operator Phasing Affects DNA Looping: Computational Study”, Single Molecule Symposium, May 18-20, 2006, Ann Arbor, MI. (Poster)

Wilson, D., T. Lillian, S. Goyal, N. C. Perkins, A. Tkachenko and J. C. Meiners, “Modeling Entropic Cost of DNA Looping”, Single Molecule Symposium, May 18-20, 2006, Ann Arbor, MI. (Poster)

Lillian, T., S. Goyal, S. Blumberg, N. C. Perkins and J. C. Meiners, “Computational Predictions of Optimal Inter-Operator A-Tract Phasing for DNA Looping”, Feb 18-22, 2006, Salt Lake City, UT, Biophysical Journal. (Poster)

Wilson, D., T. Lillian, S. Goyal, N. C. Perkins, A. Tkachenko and J. C. Meiners, “Modeling Entropic Cost of DNA Looping”, Feb 18-22, 2006, Salt Lake City, UT, Biophysical Journal. (Poster)

Goyal, S., S. Blumberg, J. C. Meiners and N. C. Perkins, “Modeling the Sequence-Dependent Energetics of Protein-Mediated DNA Loops”, Feb 12-16, 2005, Long Beach, CA, Biophysical Journal, Vol. 88, pp. 61A. (Poster)

Goyal, S., S. Blumberg, J. C. Meiners and N. C. Perkins, “Modeling the Sequence-Dependent Energetics of Protein-Mediated DNA Loops”, May 23, 2005 Research Symposium, held by the UM-NASA Bioscience and Engineering Institute (UMNBEI) (Poster)

Goyal, S. and N. C. Perkins, “Nonlinear dynamic strand model with coupled tension and torsion”, Nonlinear Vibrations, July 25-28, 2004, Blacksburg, VA. (Presented by Goyal, S.) [PDF]

Invited Seminar Talks:

Goyal, S., “Coarse-grained Model of the Nucleosome”, Mar 13-14, 2007, Tulane University, Hosted by Tom Bishop, Assistant Professor in Environmental Health Sciences. (Presented by Goyal, S.)

Goyal, S., “A Computational Rod Model to Simulate the Structural Mechancis of DNA”, Mar 8, 2007, Tufts University, Hosted by Robert White, Assistant Professor in Mechanical Engineering. (Presented by Goyal, S.)



 

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Last updated July 16, 2007
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