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Biophysical simulations

Flexible Search for Single-Axon Morphology during Neuronal Spontaneous Polarization

Honda Naoki, Shinichi Nakamuta, Kozo Kaibuchi, Shin Ishii

published 29 Apr 2011

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Discovering Conformational Sub-States Relevant to Protein Function

Arvind Ramanathan, Andrej J. Savol, Christopher J. Langmead, Pratul K. Agarwal, Chakra S. Chennubhotla

published 28 Jan 2011

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Visualization of Allostery in P-Selectin Lectin Domain Using MD Simulations

Shouqin Lü, Yan Zhang, Mian Long

published 08 Dec 2010

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Characterization of Membrane Potential Dependency of Mitochondrial Ca²⁺ Uptake by an Improved Biophysical Model of Mitochondrial Ca²⁺ Uniporter

Ranjan K. Pradhan, Feng Qi, Daniel A. Beard, Ranjan K. Dash

published 08 Oct 2010

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Bare Bones Pattern Formation: A Core Regulatory Network in Varying Geometries Reproduces Major Features of Vertebrate Limb Development and Evolution

Jianfeng Zhu, Yong-Tao Zhang, Mark S. Alber, Stuart A. Newman

published 28 May 2010

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Modeling Gastrulation in the Chick Embryo: Formation of the Primitive Streak

Bakhtier Vasiev, Ariel Balter, Mark Chaplain, James A. Glazier, Cornelis J. Weijer

published 11 May 2010

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Evaluating Molecular Mechanical Potentials for Helical Peptides and Proteins

Erik J. Thompson, Allison J. DePaul, Sarav S. Patel, Eric J. Sorin

published 07 Apr 2010

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FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

Morgan N. Price, Paramvir S. Dehal, Adam P. Arkin

published 10 Mar 2010

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Steered Molecular Dynamics Simulations Reveal the Likelier Dissociation Pathway of Imatinib from Its Targeting Kinases c-Kit and Abl

Li-Jun Yang, Jun Zou, Huan-Zhang Xie, Lin-Li Li, Yu-Quan Wei, Sheng-Yong Yang

published 24 Dec 2009

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Filamentous Biopolymers on Surfaces: Atomic Force Microscopy Images Compared with Brownian Dynamics Simulation of Filament Deposition

Norbert Mücke, Konstantin Klenin, Robert Kirmse, Malte Bussiek, Harald Herrmann, Mathias Hafner, Jörg Langowski

published 04 Nov 2009

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In Silico Generation of Alternative Hypotheses Using Causal Mapping (CMAP)

Gabriel E. Weinreb, Maryna T. Kapustina, Ken Jacobson, Timothy C. Elston

published 29 Apr 2009

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