Publications: 2013 - 2012

J.R. Peterson, M.J. Hallock, J.A. Cole, and Z. Luthey-Schulten
A Problem Solving Environment for Stochastic Biological Simulations
PyHPC '13: Proceedings of the 3rd Workshop on Python for High-Performance and Scientific Computing, 2013, DOI: 10.13140/2.1.3207.7440

J. Lai, K. Chen, and Z. Luthey-Schulten
Structural Intermediates and Folding Events in the Early Assembly of the Ribosomal Small Subunit
J. Phys. Chem. B, 117(42): 13335--13345, 2013

P. Labhsetwar, J.A. Cole, E. Roberts, N.D. Price, Z. Luthey-Schulten
Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population
Proc. Nat. Acad. Sci., 110(34):14006-11, 2013, doi: 10.1073/pnas.1222569110

M. Hartmann
Stochastic simulation of reaction-diffusion systems
Master's Thesis LMU Munich, 2013

M. Assaf, E. Roberts, Z. Luthey-Schulten, N. Goldenfeld
Extrensic noise driven phenotype switching in a self-regulating gene
Phys. Rev. Lett., 111(5), e058102,2013

L. Li, S. A. Martinis, Z. Luthey-Schulten
Capture and quality control mechanisms for adenosine-5'-triphosphate binding
J. Am. Chem. Soc., 135(16), 6047-6055,2013

E. Roberts, J. E. Stone, and Z. Luthey-Schulten
Lattice microbes: high-performance stochastic simulation method for the reaction-diffusion master equation
J. Comp. Chem., 34(3), 245-55, 2013

T. Earnest, E. Roberts, M. Assaf, K. Dahmen, and Z. Luthey-Schulten
DNA looping increases range of bistability in a stochastic model of the lac genetic switch
Phys. Biol. 10 (2013) 026002

A. VanWart, J. Eargle, Z. Luthey-Schulten, and R. Amaro
Exploring residue component contributions to dynamical network models of allostery
J. Chem. Theory Comp. 8(8),2949-2961, 2012

J. Eargle and Z. Luthey-Schulten
NetworkView: 3D display and analysis of dynamic structure networks
Bioinformatics, 28(22), 3000-1, 2012

K. Chen, J. Eargle, J. Lai, H, Kim, T. Ha, T. Abeysirigunawardena, M. Mayerle, S. Woodson, and Z. Luthey-Schulten
Assembly of the fiveway junction in the ribosomal small subunit using hybrid MD/Go simulation
Journal of Physical Chemistry B: Harold A. Scheraga Festschrift, 116:23,6819-6831, 2012

J. Eargle and Z. A. Luthey-Schulten
Chapter 11: Simulating Dynamics in RNA-Protein Complexes
In RNA 3D Structure Analysis and Prediction N. Leontis and E. Westhof (editors)
Nucleic Acids and Molecular Biology 27, DOI 10.1007/978-3-642-25740-7_11, Springer-Verlag Berlin Heidelberg 2012

L. Li, M. T. Boniecki, J. D. Jaffe, B. S. Imai, P. M. Yau, Z. Luthey-Schulten, and S. A. Martinis
Naturally occurring aminoacyl-tRNA synthetases editing-domain mutations that cause mistranslation in Mycoplasma parasites