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Photo of Linda Petzold

Linda Petzold

Mehrabian Distinguished Professor
Mechanical Engineering
Computer Science
UC Santa Barbara
Phone:
+1 805-893-5362
Email:
petzold@engineering.ucsb.edu
Website:
Website

Research Focus Areas

Research Interests

Modeling, simulation and data analytics of multiscale systems in biology, medicine and engineering.

National Academies

NAE 2004, NAS 2021

Displaying 21 - 40 of 48

ICB Supported Publications

High-performance simulation of fracture in idealized ‘brick and mortar’ composites using adaptive Monte Carlo minimization on the GPU

Rone Kwei Lim, J William Pro, Matthew R Begley, Marcel Utz and Linda R Petzold
The International Journal of High Performance Computing Applications,
10.1177/1094342015593395

Adaptive deployment of model reductions for tau-leaping simulation

Wu, S., Fu, J. and Petzold, L.R.
The Journal of Chemical Physics,
10.1063/1.4921638

Accuracy of the Michaelis–Menten approximation when analysing effects of molecular noise

M. J. Lawson, L. Petzold, and A. Hellander
Interface,
10.1098/rsif.2015.0054

Reaction rates for mesoscopic reaction-diffusion kinetics

S. Hellander, A. Hellander, and L. Petzold
Physical Review E,
10.1103/PhysRevE.91.023312

The time dependent propensity function for acceleration of spatial stochastic simulation of reaction–diffusion systems

J. Fu, S. Wu, Hong Li, L. R. Petzold
Journal of Computational Physics,
10.1016/j.jcp.2014.06.025

Local error estimates for adaptive simulation of the reaction–diffusion master equation via operator splitting

A. Hellander, M. J. Lawson, B. Drawert, and L. Petzold
J. Comput. Phys.,
10.1016/j.jcp.2014.02.004

Validity conditions for stochastic chemical kinetics in diffusion-limited systems

D. T. Gillespie, L. R. Petzold, and E. Seitaridou
J. Chem. Phys.,
10.1063/1.4863990

A neuropeptide speeds circadian entrainment by reducing intercellular synchrony

S. An, R. Harang, K. Meeker, D. Granados-Fuentes, C. A Tsai, C. Mazuski, J. Kim, F. J. Doyle, L. R. Petzold, and E. D. Herzog
Proc. Natl. Acad. Sci. U. S. A.,
10.1073/pnas.1307088110

Spatial stochastic dynamics enable robust cell polarization

M. J. Lawson, B. Drawert, M. Khammash, L. Petzold, and T.-M. Yi
PLoS Comput. Biol.,
10.1371/journal.pcbi.1003139

Perspective: Stochastic Algorithms for Chemical Kinetics

D. T. Gillespie, A. Hellander, and L. R. Petzold
J. Chem. Phys.,
10.1063/1.4801941

How the Spatial Position of Individuals Affects Their Influence on Swarms: A Numerical Comparison of Two Popular Swarm Dynamics Models

A. Kolpas, M. Busch, H. Li, I. D. Couzin, L. Petzold, and J. Moehlis
PLoS ONE,
10.1371/journal.pone.0058525

Time dependent solution for acceleration of tau-leaping

J. Fu, S. Wu, and L. R. Petzold
Journal of Computational Physics,
10.1016/j.jcp.2012.10.036

Linear noise approximation is valid over limited timesfor any chemical system that is sufficiently large

E. W. J. Wallace, D. T. Gillespie, K. R. Sanft, and L. R. Petzold
IET Systems Biology,
10.1049/iet-syb.2011.0038

Automatic identification of model reductions for discrete stochastic simulation

S. Wu, J. Fu, H. Li, and L. Petzold
Journal of Chemical Physics,
10.1063/1.4733563

URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries

B. Drawet, S. Engblom, and A. Hellander
BMC Systems Biology,
10.1186/1752-0509-6-76

Accelerated maximum likelihood parameter estimation for stochastic biochemical systems

B. Daigle, M. Roh, L. Petzold, and J. Niemi
BMC Bioinformatics,
10.1186/1471-2105-13-68

Reducing complexity in management of escience computations

P. Östberg, A. Hellander, B. Drawert, E. Elmroth, S. Holmgren, and L. Petzold
Proceedings of the Cluster, Cloud and Grid Computing (CCGrid), 2012 12th IEEE/ACM International Symposium,
10.1109/CCGrid.2012.72

Reaction-diffusion master equation in the microscopic limit

S. Hellander, A. Hellander, and L. Petzold
Physical Review E: Statistical, Nonlinear, and Soft Matter Physics,
10.1103/PhysRevE.85.042901

WAVOS: A MATLAB toolkit for wavelet analysis and visualization of oscillatory systems

R. Harang, G. Bonnet, and L. Petzold
BMC Research Notes,
10.1186/1756-0500-5-163

State-dependent doubly weighted stochastic simulation algorithm for automatic characterization of stochastic biochemical rare events

M. Roh, B. Daigle, D. Gillespie, and L. Petzold
Journal of Chemical Physics,
10.1063/1.3668100
Emblems