Publications
BOOKS
  • The Numerical Solution of Initial Value Problems in Differential-Algebraic Equations, K.E. Brenan, S.L. Campbell, and L.R. Petzold 1996, SIAM Classics Series
  • Computer Methods for Ordinary Differential Equations and Differential-Algebraic Equations. Uri M. Ascher and Linda R. Petzold, 1998, SIAM

PAPERS

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  • Core Module Biomarker Identification with Network Exploration for Breast Cancer Metastasis, Routing Yang, Bernie Daigle, Jr., Linda R. Petzold and Francis J. Doyle III, BMC Bioinfomatics 13:12. 2012
     PMID: 22257533
  • State-dependent Doubly Weighted Stochastic Simulation Algorithm for Automatic Characterization of Stochastic Biochemical Rare Events, Min Roh, Bernie Daigle, Jr., Dan Gillespie and Linda Petzold, J. Chem. Phys. 135(23):234108. 2011
     © 2011 American Institute of Physics. The article may be downloaded for personal use only. Any other use requires prior permission of the authors and the American Institute of Physics. Journal Version PMCID: PMC3264419
  • StochKit2: Software for Discrete Stochastic Simulation of Biochemical Systems with Events, Kevin R. Sanft, Sheng Wu, Min Roh, Jin Fu, Rone Kwei Lim and Linda R. Petzold, Bioinformatics (2011) 27(17): 2457-2458. 2011
     © The Authors 2011. Published by Oxford University Press. Journal Version PMCID: PMC3157925
  • Michaelis-Menten Speeds up Tau-leaping Under a Wide Range of Conditions, S. Wu, J. Fu, Y. Cao and L. Petzold, J. Chem. Phys. 134, 134112. 2011
     © 2011 American Institute of Physics. The article may be downloaded for personal use only. Any other use requires prior permission of the authors and the American Institute of Physics. Journal Version PMCID: PMC3087420
  • Legitimacy of the Stochastic Michaelis-Menten Approximation, K.R. Sanft, D.T. Gillespie and L.R. Petzold, IET Systems Biology, 5(1), 58-69. 2011
      © The Institution of Engineering and Technology 2011 Journal version PMID: 21261403
  • Automated Estimation of Rare Event Probabilities in Biochemical Systems, B. Daigle, M. Roh, D. Gillespie and L. Petzold, J. Chem. Phys. 134, 044110. 2011
     © 2011 American Institute of Physics. The article may be downloaded for personal use only. Any other use requires prior permission of the authors and the American Institute of Physics. Journal Version PMCID: PMC3045218
  • Wavelet Measurement Suggests Cause of Period Instability in Mammalian Circadian Neurons, K. Meeker, R. Harang, A.B. Webb, D.K. Welsh, F.J. Doyle III, G. Bonnet, E.D. Herzog and L.R. Petzold, J. of Biological Rhythms 26(4):353-62. 2011
     PMID: 21775294
  • Undergraduate Computational Science and Engineering Education, P. Turner and L. Petzold, Co-Chairs, A. Shiflet, I. Vakalis, K. Jordan and S. St. John, SIAM Working Group on CSE Undergraduate Education, SIAM Review 53(3), 561-574. 2011
  • Identifying Learning in a Visuomotor Skill, J.A. Abdur-Rahim, L.R. Petzold, S.T. Grafton and F.J. Doyle III, Transactions on Biomedical Engineering, Submitted 2011
  • Spatial Localization of Chaperone Distribution in the Endoplasmic Reticulum of Yeast, M. Griesemer, C. Young, A. Robinson and L. Petzold, Submitted 2011
  • Confidence from Uncertainty - A Multi-Target Drug Screening Method from Robust Control Theory, C. Luni, J. Shoemaker, K. Sanft, L. Petzold, F. Doyle, BMC Systems Biology 4:161 2010
     PMID: 21106087
  • State-Dependent Biasing Method for Importance Sampling in the Weighted Stochastic Simulation Algorithm, M. Roh, D. Gillespie, L. Petzold, J. Chem. Phys. 133, p. 174106 2010
     PMCID: PMC3188645
  • Velocity Response Curves Support the Role of Continuous Entrainment in Circadian Clocks, S. Taylor, A. Webb, K. Smith, L. Petzold, F. Doyle III, J. Biological Rhythms 25(2):138-149 2010
     PMID: 20348465
  • The Diffusive Finite State Projection Algorithm for Efficient Simulation of the Stochastic Reaction-Diffusion Master Equation, B. Drawert, M. J. Lawson, L. Petzold, M. Khammash, J. Chem. Phys. 132(7), 074101 (12 pages) 2010
     © 2010 American Institute of Physics Journal version PMCID: PMC2905448
  • Modelling of Detailed Insulin Receptor Kinetics Affects Sensitivity and Noise in the Downstream Signalling Pathway, C. Luni, K. Sanft, L. Petzold, F. Doyle III, DYCOPS2010, 9th IFAC Symposium on Dynamics and Control of Process Systems, Leuven, Belgium 2010
  • An Algorithm for Simulation of Electrochemical Systems with Surface-Bulk Coupling Strategies, M. Buoni and L. Petzold, J. Comp. Phys. 229(2), pp. 379-398 2010
  • Refining the Weighted Stochastic Simulation Algorithm, D. T. Gillespie, M. Roh and L. R. Petzold, J. Chem. Phys. 130, p. 174103 2009
     PMCID: PMC2832048
  • The Subtle Business of Model Reduction for Stochastic Chemical Kinetics, D. T. Gillespie, Y. Cao, K. R, Sanft and L. R. Petzold, J. Chem. Phys. 130, 064103 (12 pages) 2009
     PMCID: PMC2675560
  • The Multinomial Simulation Algorithm for Discrete Stochastic Simulation of Reaction-Diffusion Systems, S. Lampoudi , D. Gillespie, and L. Petzold, J. Chem. Phys. 130(9), pp. 094104-094104-26 2009
     PMCID: PMC2671688
  • Effect of excluded volume on 2D discrete stochastic chemical kinetics, S. Lampoudi, D. Gillespie, L. Petzold, J. Comp. Phys. 228(10), pp. 3656-3668 2009
     PMCID: PMC2666880
  • Kinetic Modeling of Biological Systems, H. Resat, L. Petzold, M. F. Pettigrew, Computational Systems Biology, Vol. 541, Jason McDermott et al. (eds.), Humana Press 2009
  • Undergraduate Computational Science and Engineering Education, P. Turner, L. Petzold, A. Shiflet, I. Vakalis and K. Jordan, Submitted 2009
  • An Algorithm for Simulation of Electrochemical Systems with Surface-Bulk Coupling Strategies, M. Buoni and L. Petzold, 18th IMACS CONGRESS MODSIM 2009
  • Abridging Chemical Reaction Networks: It's a Subtle Business, D. Gillespie, Y. Cao, K. Sanft and L. Petzold, Proc. 2009 FOSBE Conference 2009
  • Model-Based Therapeutic Target Discrimination using Stochastic Simulation and Robustness Analysis in an Insulin Signaling Pathway, E. Kwei, J. Shoemaker, K. Sanft, L. Petzold and F. Doyle III, Proc. 2009 FOSBE conference 2009
  • Modeling the Impact of Spatial Localization of Protein Function in the Endoplasmic Reticulum of Yeast, M. B. Griesemer, C. L. Young, D. Raden, F. J. Doyle III, A. S. Robinson and L. R. Petzold, Proc. 2009 FOSBE Conference 2009
  • A Model of Macroscale Deformation and Microvibration in Skeletal Muscle Tissue, B. Simeon, R. Serban and L. Petzold, M2AN 43, pp. 805-823 2009
  • Parallel Simulation for a Fish Schooling Model on a General-Purpose Graphics Processing Unit, H. Li, A. Kolpas, L. Petzold, J. Moehlis, Concurrency and Computation: Practice and Experience. 21(6), pp. 725-737. 2009
  • Efficient Parallelization of the Stochastic Simulation Algorithm for Chemically Reacting Systems on the Graphics Processing Unit, H. Li, L. Petzold, Int. J. of High Performance Computing Applications 24(2), pp. 107-116 2009
  • A Framework for the Analysis of Second Order Projection Methods, Z. Zheng, L. Petzold and B. Simeon, Submitted 2009
  • Synchrony and Entrainment Properties of Robust Circadian Oscillators, N. Bagheri, S. R. Taylor, K. Meeker, L. R. Petzold and F. J. Doyle III, J. Royal Society Interface 6 (5), pp. S17-S28 2008
     PMCID: PMC2706452
  • Oscillator Model Reduction Preserving the Phase Response: Application to the Circadian Clock, S. Taylor, F. Doyle, L. Petzold, Biophysical Journal 95(4) 2008
     PMCID: PMC2483761
  • A Top-Down Approach to Mechanistic Biological Modeling; Application to Single-Chain Antibody Folding, S. Hildebrandt, D. Raden, L. Petzold, A. S. Robinson, F. J. Doyle III, Biophysical Journal 95(8), pp. 3535-3558 2008
     PMCID: PMC2553102
  • Slow Scale Tau-leaping Method, Y. Cao and L. Petzold, Computer Methods in Applied Mechanics and Engineering 197, pp. 3472-3479 2008
     PMCID: PMC2753989
  • Algorithms and Software for Stochastic Simulation of Biochemical Reacting Systems, H. Li, Y. Cao, L. Petzold, D. Gillespie, Biotechnology Progress 24(1), pp. 56-62 2008
     PMCID: PMC2664303
  • Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network, S. Taylor, R. Gunawan, L. Petzold, Francis J. Doyle III, IEEE Trans. Automat. Contr. 53, pp. 177-188 2008
     PMCID: PMC2707818
  • Differential-algebraic equations, Stephen L. Campbell et al, Scholarpedia, 3(8):2849 2008
  • Systems Analysis of the Insulin Signaling Pathway, E. C. Kwei, K. R. Sanft, L. R. Petzold , F. J. Doyle III, Proc. 17th IFAC World Congress, Seoul, Korea, July 2008
  • A Hybrid Multiscale Kinetic Monte Carlo Method for Simulation of Copper Electrodeposition, Z. Zheng, R. Stephens, R. Braatz, R. Alkire, L. Petzold, J. Comp. Phys. 227, 2008, pp. 5184-5199 2008
  • A Stabilized Explicit Lagrange Multiplier Based Domain Decomposition Method for Parabolic Problems, Z. Zheng, B. Simeon, L. Petzold, J. Comp. Phys. 227, May 2008, pp. 5272-5285. 2008
  • Detection of a MicroRNA Signal in an In Vivo ExpressionSet of mRNAs, R. Liu, T. Papagiannakopoulos, K. Puskar, S. Qi, F. Santiago, W. Clay, K. Lao, Y. Lee, S. Nelson, H. Kornblum, F. Doyle, L. Petzold, B. Shraiman, K. Kosik, Plos One, Vol. 8, August 2007, e804 2007
  • Synchrony and Entrainment Properties of Robust Circadian Oscillators, N. Bagheri, S. Taylor, K. Meeker, L. Petzold, F. Doyle, Proc. FOSBE Conf. 2007
  • Computational Modeling of Chaperone Interactions in the Endoplasmic Reticulum of Saccharomyces Cerevisai, M. Griesemer, C. Young, D. Raden, F. Doyle III, A. Robinson,L. Petzold, FOSBE 2007 Conference Proceedings. 2007
  • Robust Timekeeping in Circadian Networks: From Genes to Cells, N. Bagheri, S. Taylor, K. Meeker,L. Petzold,F. Doyle III, FOSBE 2007 Conference Proceedings. 2007
  • Effect of Reactant Size on Discrete Stochastic Chemical Kinetics, D. Gillespie, S. Lampoudi, L. Petzold, J. Chem. Phys. 126(3), 034302-034302-9 2007
  • The Adaptive Explicit-Implicit Tau-Leaping Method with Automatic Tau Selection, Y. Cao, D. Gillespie, L. Petzold, J. Chem. Phys. 126(22), pp. 224101-224101-9, 2007. 2007
  • Optimal Control of Mixing in Stokes Fluid Flows, G. Mathew, I. Mezic, S. Grivopoulos, U. Vaidya, L. Petzold, J. Fluid Mech. 580, pp. 261-281 2007
  • An Efficient, Scalable Numerical Algorithm for the Simulation of Electrochemical Systems on Irregular Domains: Full Technical Details, M. Buoni and L. Petzold, J. Comp. Phys. 225(2), pp. 2320-2332 2007
  • The Effect of Problem Perturbations on Nonlinear Dynamical Systems and their Reduced Order Models, R. Serban, C. Homescu and L. Petzold, SIAM J. Sci. Comput., Vol. 29, No. 6, pp. 2621-2643 2007
  • Undergraduate Computational Science and Engineering Education, SIAM Working Group on CSE Undergraduate Education 2006
  • Sensitivity Analysis of Differential-Algebraic Equations and Partial Differential Equations, L. Petzold, S. Li, Y. Cao and R. Serban, Computers, Chemical Engineering 30 30, pp. 1553-1559 2006
  • Logarithmic Direct Method for Discrete Stochastic Simulation of Chemically Reacting Systems, H. Li and L. Petzold, Technical report 2006
  • Numerical Simulation for Biochemical Kinetics, Book chapter by D. Gillespie and L. Petzold, In System Modelling in Cellular Biology, Ed. Z. Szallasi, J. Stelling, V. Periwal MIT Press 2006
  • A Monte Carlo Simulation Study of Lipid Bilayer Formation on Hydrophilic Substrates from Vesicle Solutions Z. Zheng, D. Stroumpoulis, A. Parra, L. Petzold and M. Tirrell, J. Chem. Phys. 7 2006
  • Efficient Stepsize Selection for the Tau-Leaping Method, Y. Cao, D. Gillespie and L. Petzold, J. Chem. Phys. 124, 044109-144109-11 2006
  • Runge-Kutta-Chebyshev Projection Method, Z. Zheng and L. Petzold, J. Comp. Phys. 219, 976-991 2006
  • Accuracy Limitations and the Measurement of Errors in the Stochastic Simulation of Chemically Reacting Systems, Y. Cao and L. Petzold, J. Comp. Phys. 212(1), pp. 6-24 2006
  • Trapezoidal Tau-Leaping Formula for the Stochastic Simulation of Biochemical Systems, Yang Cao and Linda Petzold, Proc. of Foundations of Systems Biology in Engineering (FOSBE) Conf., pp. 149-152. 2005
  • Comment on 'Nested Stochastic Simulation Algorithm for Chemical Kinetic Systems with Disparate Rates', D. Gillespie, L. Petzold, Y. Cao, J. Chem. Phys. 126, pp. 137101-137101-4 2005
  • Stochastic Modeling of Gene Regulatory Networks, H. El Samad, M. Khammash, L. Petzold and D. Gillespie, Int. J. Robust and Nonlinear Control, 15:691-711 2005
  • Avoiding Negative Populations in Explicit Poisson Tau Leaping, Y. Cao, D. Gillespie and L. Petzold, J. Chem. Phys.123, pp. 054104-054112 2005
  • Accelerated Stochastic Simulation of the Stiff Enzyme-Substrate Reaction, Y. Cao, D. Gillespie and L. Petzold, J. Chem. Phys. 123(14), pp. 144917-144929 2005
  • Sensitivity Analysis of Discrete Stochastic Systems, R. Gunawan, Y. Cao, L. Petzold and F. Doyle, Biophys. J. 88:2530-2540 2005
  • Optimal Performance of the Heat-Shock Gene Regulatory Network, H. El Samad, M. Khammash, C. Homescu and L. Petzold, Proceedings 16th IFAC World Congress, held in Prague, Czech Republic, July 2005
  • Efficient Solution and Sensitivity Analysis of Partial Differential-Algebraic Equation Systems Modelling Corrosion Pit Initiation, J. Gray, C. Homescu, L. R. Petzold, R. C. Alkire, J., Electrochem. Soc. 152(8). 2005
  • Digital Filter Stepsize Control in DASPK and its Effect on Control Optimization Performance, K. Meeker, C. Homescu, L. Petzold, H. El-Samad, M. Khammash,G. Soderlind, Proc. Sandia Real-Time Optimization PDE Optimization Conf. 2005
  • A Multiscale Measure for Mixing, G. Mathew, I. Mezic and L. Petzold,, Physica D 211 (1-2): pp. 23-46. 2005
  • The Slow-Scale Stochastic Simulation Algorithm, Y. Cao, D. Gillespie and L. Petzold, J. Chem. Phys. 122(1), 014116-014166-18. 2005
  • Simulation of Fluid Slip at Hydrophobic Microchannel Walls by the Lattice Boltzmann Method, L. Zhu, D. Tretheway, C. Meinhart and L. Petzold, J. Comp. Phys. 202, pp. 181-195. 2005
  • Multiscale Stochastic Simulation Algorithm with Stochastic Partial Equilibrium Assumption for Chemically Reacting Systems, Y. Cao, D. Gillespie and L. Petzold, J. Comp. Phys. 206(2) pp. 395-411. 2005
  • Consistency and Stability of Tau-Leaping Schemes for Chemical Reaction Systems, M. Rathinam, L. R. Petzold, Y. Cao, D. T. Gillespie, Multiscale Modeling and Simulation (SIAM) 4(3), 867-895. 2005
  • Error Estimation for Reduced-Order Models of Dynamical Systems C. Homescu, L. R. Petzold and R. Serban, SIAM J. Numer. Anal. 43, pp. 1693-1714, 2005. Also, selected to appear in the SIGEST section of SIAM Review 49(2), pp. 277-299. 2005
  • Digital Filter Stepsize Control of DASPK and its Effect on Control Optimization Performance, Kirsten Meeker, M.S. thesis, Computer Science, UCSB. 2004
  • The Numerical Stability of Leaping Methods for Stochastic Simulation of Chemically Reacting Systems, Y. Cao, L. Petzold, M. Rathinam, and D. Gillespie, J. Chem. Phys. 121(24), 12169-12178. 2004
  • Efficient Formulation of the Stochastic Simulation Algorithm for Chemically Reacting Systems, Y. Cao, H. Li, L. R. Petzold, Journal of Chemical Physics 121 (9), 4059-4067 2004
  • Optimization of Mixing in an Active Micromixing Device, G. Mathew, I. Mezic, R. Serban and L. Petzold, Nanotech04 Proceedings 2004
  • SOI Processing of a Ring Electrokinetic Chaotic Micromixer, Y. T. Zhang, H. Chen, I. Mezic, C. D. Meinhart, L. Petzold and N. C. MacDonald, Nanotech04 Proceedings 2004
  • Parallel Simulation of Fluid Slip in a Microchannel, J. Zhou, L. Zhu, L. Petzold and T. Yang, Int. Parallel,Dist. Processing Symposium IPDPS04 2004
  • Simulation of Fluid Slip at 3D Hydrophobic Microchannel Walls by the Lattice Boltzmann Method, L. Zhu, D. Tretheway, L. Petzold and C. Meinhart, submitted, J. Comput. Phys. 2004
  • A Posteriori Error Estimation and Global Error Control for Ordinary Differential Equations by the Adjoint Method, Y. Cao and L. Petzold, SIAM J. Scientific Computing 26(2), 359-374. 2004
  • An Error Estimate for Matrix Equations, Y. Cao and L. Petzold, Applied Numerical Mathematics 50(3-4), 395-407. 2004
  • Adjoint Sensitivity Analysis for Time-Dependent Partial Differential Equations with Adaptive Mesh Refinement, S. Li and L. Petzold, Journal of Computational Physics 198(1), 310-325. 2004
  • Error Estimation for Reduced Order Models of Dynamical Systems C. Homescu, L. R. Petzold and R. Serban, LLNL Technical Report. 2003
  • Numerical Simulation of an Electroosmotic Micromixer, H. Chen, Y. Zhang, I. Mezic, C. Meinhart and L. Petzold, Proceedings of IMECE'2003, 2003 ASME International Mechanical Engineering Congress and Exosition, Washington, D. C., Nov. 15-21 2003
  • Update Wizardry: Automatically Generating Update and Import Wizards for Evolving XML-encoded GUIs, A. Strelzoff and L. Petzold, 18th Annual ACM SIGPLAN Conference on Object Oriented Programming, Systems, Languages and Applications. 2003
  • Algorithms and Computing Architectures for Solving Differential-Algebraic Equation Systems Typically Encountered in Models of Corrosion Pit Initiation, J. Gray, C. Homescu, L. Petzold and R. Alkire, Abstract, presented at 204th Meeting of The Electrochemical Society in Orlando, FL, October 12-October 16. 2003
  • Adaptive Numerical Methods for Sensitivity Analysis of Differential-Algebraic Equations and Partial Differential Equations, L. Petzold, Y. Cao, S. Li and R. Serban, Proceedings, Workshop on Modelling, Simulation in Chemical Engineering 2003
  • A Multiscale Measure for Mixing and its Applications, G. Mathew, I. Mezic and L. Petzold,, IEEE Conf. on Decision,Control. 2003
  • Decision Tree Organization for GUI Generation, A. Strelzoff and L. Petzold, Proceedings, 28th Annual IEEE/NASA Software Engineering Workshop, Dec 2-4 Greenbelt Maryland. 2003
  • Revision Recognition for Scientific Computing: Theory and Application, A. Strelzoff and L. Petzold, Proceedings, SEKE03, Fifteenth International Conference on Software Engineeringand Knowledge Engineering. 2003
  • Deriving User Interface Requirements from Densly Interleaved Scientific Computing Applications, A. Strelzoff and L. Petzold, Proceedings,18th IEEE International Conferenceon Automated Software Engineering, Oct. 6-10. 2003
  • Stiffness in Stochastic Chemically Reacting Systems: The Implicit Tau-Leaping Method, M. Rathinam, L. Petzold, and D. Gillespie, J. Chemical Physics 119 (24), 12784-12794. 2003
  • Improved Leap-Size Selection for Accelerated Stochastic Simulation, D. Gillespie and L. Petzold, J. Chemical Physics 119, pp. 8229-8234. 2003
  • Description of DASPKADJOINT: An Adjoint Sensitivity Solver for Differential-Algebraic Equations, S. Li and L. Petzold, Technical Report. 2003
  • Adaptive Algorithms for Optimal Control of Time-Dependent Partial Differential-Algebraic Equation Systems, R. Serban, S. Li and L. Petzold, Int. J. Num. Methods in Engineering 57(10), 1457-1469. 2003
  • A New Look at Proper Orthogonal Decomposition, M. Rathinam and L. Petzold, SIAM J. Num. Anal. 41 (5), 1893-1925. 2003
  • Dynamic Iteration using Reduced Order Models: A Method for Simulation of Large Scale Modular Systems, M. Rathinam and L. Petzold, SIAM J. Num. Anal. 40(4), 1446-1474. 2003
  • A Subspace Error Estimate for Linear Systems, Y. Cao and L. Petzold, SIAM J. Mat. Anal. Appl. 24, pp. 787-801. 2003
  • An Adaptive Moving Mesh Method with Static Rezoning for Partial Differential Equations, J. M. Hyman, S. Li and L. Petzold, Computers and Mathematics with Applications 46, 1511-1524. 2003
  • Solution Adapted Mesh Refinement and Sensitivity Analysis for Parabolic Partial Differential Equation Systems, S. Li, L. Petzold and J. M. Hyman, Lecture Notes in Computational Science and Engineering 30, Springer-Verlag, Heidelberg. 2003
  • Adjoint Sensitivity Analysis for Differential-Algebraic Equations: The Adjoint DAE System and its Numerical Solution, Y. Cao, S. Li, L. R. Petzold and R. Serban, SIAM J. Sci. Comput. 24(3), 1076-1089,. 2003
  • Efficient Integration over Discontinuities for Differential-Algebraic Systems, Guiyou Mao and L.R. Petzold, Computers and Mathematics with Applications 43, 65-79. 2002
  • Examination of the Slip Boundary Condition by Micro-PIV and Lattice Boltzmann Simulations, D. Tretheway, L. Zhu, L. Petzold and C. Meinhart, Proceedings of IMECE'2002, 2002 ASME International Mechanical Engineering Congress and Exosition, New Orleans, Louisiana, Nov. 17-22 2002
  • Computational Techniques for Quantification and Optimization of Mixing in Microfluidic Devices, G. Mathew, L. Petzold and R. Serban, Technical Report 2002
  • Adjoint Sensitivity Analysis for Differential-Algebraic Equations: Algorithms and Software, Y. Cao, S. Li and L. R. Petzold, J. Comp. Appl. Math. 149, 171-192. 2002
  • Efficient Computation of Sensitivities for Ordinary Differential Equation Boundary Value Problems, R. Serban and L.R. Petzold, SIAM J. Num. Analysis, 40(1), 220-232. 2002
  • Constraint Partitioning for Structure in Path-Constrained Dynamic Optimization Problems, S. Raha and L.R. Petzold, Applied Numerical Mathematics 39 pp. 65-. 2002
  • Halo Orbit Mission Correction Maneuvers Using Optimal Control, R. Serban, W.S. Koon, M. Lo, J. Marsden, L.R. Petzold, S.D. Ros and R. Wilson, Vol 38(4), pp. 571-583 2002
  • Variational Optimisation by the Solution of a Series of Hamilton-Jacobi Equations, P.K. Venkatesh, L.R. Petzold, R.W. Carr, M.H. Cohen and A.M. Dean, Physica D 154, 15-25. 2001
  • Graduate Education in Computational Science and Engineering, SIAM Working Group on CSE Education (L. Petzold chair), SIAM Review 43 (1), pp. 163-177. 2001
  • Constraint Partitioning for Stability in Path-Constrained Dynamic Optimization Problems, S. Raha and L.R. Petzold, SIAM J. Sci. Comput. 22(6), pp. 2051-2074. 2001
  • COOPT - A Software Package for Optimal Control of Large-Scale Differential-Algebraic Equation Systems, R. Serban and L.R. Petzold, J. Math. and Computers in Simulation 56 (2), pp. 187-204 2001
  • COOPT - Control and Optimization of Dynamic Systems: Users' Guide, Radu Serban, UCSB Technical Report 2001
  • An Iterative Method for Simulation of Large Scale Modular Systems using Reduced Order Models, M. Rathinam and L. R. Petzold, Proc. IEEE Control and Decision Conference, Sydney, Australia, December 2000
  • Sensitivity Analysis and Design Optimization of Differential-Algebraic Equation Systems, L. Petzold, R. Serban, S. Li, S. Raha and Y. Cao, Proc. NATO Advanced Research Workshop on Computational Aspects of Nonlinear Structural Systems with Large Rigid Body Motion 2000
  • A Numerical Study of Transient Ignition in a Counterflow Nonpremixed Methane-Air Flame Using Adaptive Time Integration, H. G. Im, L. L. Raja, R. J. Kee and L.R. Petzold, Combust. Sci. and Tech. 158 2000
  • A Problem Solving Environment for Dynamic Optimization of Partial Differential-Algebraic Equation Systems, L.R. Petzold, R. Serban, S. Li, S. Raha and A. Strelzoff, 16th IMACS World Congress, Lausanne, Switzerland 2000
  • Optimal Control for Halo Orbit Missions, R. Serban, W.S. Koon, M. Lo, J. Marsden, L.R. Petzold, S.D. Ross and R. Wilson, Proc. IFAC Workshop on Lagrangian,Hamiltonian Methods for Nonlinear Control, Princeton, NJ 2000
  • Computational Algorithm for Dynamic Optimization of Chemical Vapor Deposition Processes in Stagnation Flow Reactors, L.L. Raja, R.J. Kee, R. Serban and L.R. Petzold, Journal of the Electrochemical Society, Vol. 147(7), 2718-2726 2000
  • An SQP Method for the Optimal Control of Large-Scale Dynamical Systems, Philip Gill, Laurent Jay, Michael Leonard, Linda Petzold and Vivek Sharma, J. Comp. Appl. Math. 120, pp. 197-213. 2000
  • Sensitivity Analysis of Differential-Algebraic Equations: A Comparison of Methods on a Special Problem, Shengtai Li, Linda Petzold and Wenjie Zhu, Applied Numerical Mathematics 32, pp. 161-174. 2000
  • Software and Algorithms for Sensitivity Analysis of Large-Scale Differential-Algebraic Systems, S. Li and L.R. Petzold, J. Comp. Appl. Math. 125, pp. 131-145 2000
  • Dynamic Optimization of Chemically Reacting Stagnation Flows, L.L. Raja, R.J. Kee, R. Serban and L.R. Petzold, Fundamental Gas-phase, Surface Chemistry of Vapor-Phase Materials Synthesis, Eds. M.D. Allendorf, M.R. Zachariah, L. Mountziaris, and A.H. McDaniel, Electrochem. Soc. Proc. Series 98-23, p.340-351 1999
  • Design of New DASPK for Sensitivity Analysis, Shengtai Li and Linda Petzold, UCSB Technical Report. 1999
  • Model Reduction for Chemical Kinetics: An Optimization Approach, Wenjie Zhu and Linda Petzold, AIChE Journal, pp. 869-886 1999
  • Parallel Sensitivity Analysis for DAEs with Many Parameters, Wenjie Zhu and Linda Petzold, Concurrency: Practice and Experience, 11(10), 571-585 1999
  • Simulation of the Transient, Compressible, Gas-Dynamic Behavior of Catalytic-Comustion Ignition in Stagnation Flows, L.L. Raja, R.J. Kee and L.R. Petzold, Twenty-Seventh Symposium (International) on Combustion/The Combustion Institute, 2249-2257 1998
  • A Time Integration Algorithm for Flexible Mechanism Dynamics: The DAE-Alpha Method, Jeng Yen, Linda Petzold and Soumyendu Raha, Computer Methods in Applied Mechanics, Engineering 158, pp. 341-355 1998
  • Asymptotic Stability of Hessenberg Delay Differential-Algebraic Equations of Retarded or Neutral Type, Wenjie Zhu and Linda Petzold, Applied Numerical Mathematics 27, pp. 309-325 1998
  • Consistent Initial Condition Calculation For Differential-Algebraic Systems, Peter Brown, Alan Hindmarsh and Linda Petzold, SIAM J. Sci. Comput., 19(5), 1495-1512. 1998
  • An Efficient Newton-Type Iteration for the Numerical Solution of Highly Oscillatory Constrained Multibody Dynamic Systems, J. Yen and L. R. Petzold, SIAM J. Sci. Comput. 19, 1513-1534 1998
  • Stability of Moving Mesh Systems of Partial Differential Equations, S. Li, L. Petzold and Y. Ren, SIAM J. Sci. Comput. 20(2), pp. 719-738 1998
  • Rheology of Reconstituted Type I Collagen Gel in Confined Compression, D.M. Knapp, V.H. Barocas, A.G. Moon, K. Yoo, L.R. Petzold and R.T. Tranquillo, J. Rheol., 41(5), 971-993. 1997
  • Regularization of Higher-Index Differential-Algebraic Equations with Rank-Deficient Constraints, Linda R. Petzold, Yuhe Ren and Timothy Maly, SIAM J. Sci. Comput., 18(3), 753-774. 1997
  • Asymptotic Stability of Linear Delay Differential Algebraic Equations and Numerical Methods, Wenjie Zhu and Linda Petzold, Applied Numerical Mathematics 24, pp. 247-264 1997
  • Numerical Solution of Highly Oscillatory Ordinary Differential Equations, Linda Petzold, Laurent Jay and Jeng Yen, Acta Numerica 6, pp. 437-484 1997
  • Moving Mesh Methods with Upwinding Schemes for Time-Dependent PDEs, S. Li and L. Petzold, J. Computational Phys. 131, 368-377. 1997
  • Regularization of Index-One Differential-Algebraic Equations with Rank-Deficient Constraints, P.K. Moore, Linda R Petzold and Yuhe Ren, Computers and Mathematics with Applications 35(5), pp. 43-61 1997
  • Numerical Methods and Software for Sensitivity Analysis of Differential Algebraic Equations, Timothy Maly and Linda Petzold, Applied Numerical Mathematics 20, 57-79. 1996
  • Computing Space-time Curvature via Differential-Algebraic Equations, S.F. Ashby, S.L. Lee, L.R. Petzold, P.E. Saylor and E. Seidel, Applied Numerical Mathematics 20, 221-234. 1996
  • Numerical Optimal Control of Parabolic PDEs using DASOPT, L. Petzold, J. B. Rosen, P. E. Gill, L. O. Jay and K. Park, Proc. IMA Workshop on Large-Scale Optimization. 1996
  • DASPK: A New High Order and Adaptive Time-Integration Technique with Applications to Mantle Convection with Strongly Temperature and Pressure-Dependent Rheology, P.E. Van Keken, D.A. Yuen and L.R. Petzold, Geophys. Astrophys. Fluid Dynamics 80, 57-74. 1995
  • Algorithms and Software for Ordinary Differential Equations and Differential-Algebraic Equations, Part II: Higher-Order Methods and Software Packages, Alan C. Hindmarsh and Linda R. Petzold, Computers in Physics, 9(2), 148-155. 1995
  • Parallel Solution of Large-Scale Differential-Algebraic Systems, R.S. Maier, L.R. Petzold and W. Rath, Concurrency: Practice and Experience, 7(8), 795-822. 1995
  • Highly Oscillatory Systems and Periodic Stability, Laurent O. Jay and Linda R. Petzold, Technical Report 1995
  • The Numerical Solution of Delay-Differential-Algebraic Equations of Retarded and Neutral Type, U. Ascher and L. Petzold, SIAM J. on Numerical Analysis 32, 1635-1657 1995
  • Convergence of the Iterative Methods for Coordinate Splitting Formulation in Multibody Dynamics, Jeng Yen and Linda Petzold, Technical Report 1995
  • Numerical Solution of Nonlinear Oscillatory Multibody Dynamic Systems, J. Yen and L. R. Petzold, Proc. of 16th Numerical Analysis Conference, University of Dundee. 1995
  • A Stepsize Control Strategy for Stiff Systems of Ordinary Differential Equations, Peter K. Moore and Linda R. Petzold, Applied Numerical Mathematics 15, 449-463. 1994
  • On the Numerical Solution of Constrained Multibody Dynamic Systems, J. Yen and L. R. Petzold, Technical Report 1994
  • Using Krylov Methods in the Solutions of Large-Scale Differential-Algebraic Systems, P.N. Brown, A.C. Hindmarsh and L.R. Petzold, Technical Report 1993
  • Stabilization of Constrained Mechanical Systems with DAEs and Invariant Manifolds, U.M. Ascher, H. Chin, L.R. Petzold and S. Reich, Technical Report 1993
  • Stability of Computational Methods for Constrained Dynamics Systems, Uri M. Ascher and Linda R. Petzold, SIAM J. Sci. Comput., 14(1), 95-120. 1993
  • Numerical Solution of Differential-Algebraic Equations in Mechanical Systems Simulation, Linda R. Petzold, Physica D 60, 269-279. 1992
  • Projected Collocation for Higher-Order Higher-Index Differential-Algebraic Equations, Uri M. Ascher and Linda R. Petzold, Journal of Computational and Applied Mathematics 43, 243-259. 1992
  • ODAE Methods for the Numerical Solution of Euler-Lagrange Equations, Linda R. Petzold and Florian A. Potra, Applied Numerical Mathematics 10, 397-413. 1992
  • Projected Implicit Runge-Kutta Methods for Differential-Algebraic Equations, Uri M. Ascher and Linda R. Petzold, SIAM J. Numer. Anal., 28(4), 1097-1120. 1991
  • Approximation Methods for the Consistent Initialization of Differential-Algebraic Equations, B. Leimkuhler, L.R. Petzold and C.W. Gear, SIAM J. Numer. Anal., 28(1), 205-226. 1991
  • On Order Reduction for Runge-Kutta Methods Applied to Differential/Algebraic Systems and to Stiff Systems, Kevin Burrage and Linda Petzold, SIAM J. Numer. Anal., 27(2), 447-456. 1990
  • Recent Developments in the Numerical Solution of Differential/Algebraic Systems, Linda R. Petzold, Computer Methods in Applied Mechanics and Engineering 75, 77-89. [Also appeared in (1990) Lectures in Applied Mathematics, 25, 177-190.] 1989
  • Numerical Solutions of Boundary Value Problems in Differential-Algebraic Systems, Kenneth D. Clark and Linda R. Petzold, SIAM J. Sci. Stat. Comput., 10(5), 915-936. 1989
  • The Numerical Solution of Higher Index Differential/Algebraic Equations by Implicit Methods, Kathryn E. Brenan and Linds R. Petzold, SIAM J. Numer. Anal., 26(4), 976-996. 1989
  • Observations on an Adaptive Moving Grid Method for One-Dimensional Systems of Partial Differential Equations, Linda R. Petzold, Applied Numerical Mathematics 3, 347-360. 1987
  • A Differential/Algebraic Equations Formulation of the Method-of-Lines Solution of Partial Differential Equations, R.J. Kee and L.R. Petzold, Sandia Report 1986
  • Numerical Solution of Nonlinear Differential Equations with Algebraic Constraints I: Convergence Results for Backward Differentiation Formulas, Per Lötstedt and Linda Petzold, Mathematics of Computation, 46(174), 491-516. 1986
  • Numerical Solution of Nonlinear Differential Equations with Algebraic Constraints II: Practical Implications, Linda Petzold and Per Lötstedt, SIAM J. Sci. Stat. Comput., 7(3), 720-733. 1986
  • Order Results for Implicit Runge-Kutta Methods Applied to Differential/Algebraic Systems, L.R. Petzold, SIAM J. Numer. Anal., 23(4), 837-852. 1986
  • ODE Methods for the Solution of Differential/Algebraic Systems, C.W. Gear and L.R. Petzold, SIAM J. Num. Anal., 21(4), 716-728. 1984
  • Automatic Selection of Methods for Solving Stiff and Nonstiff Systems of Ordinary Differential Equations, Linda Petzold, SIAM J. Sci. Stat. Comput., 4(1), 136-148. 1983
  • Canonical Forms and Solvable Singular Systems of Differential Equations, S. L. Campbell and L. R. Petzold, SIAM J. Alg. Disc. Meth., (4)4, 517-521. 1983
  • A Description of DASSL: A Differential/Algebraic System Solver, L. R. Petzold, Proc. IMACS World Congress 1982
  • Differential/Algebraic Equations are not ODEs, L. R. Petzold, SIAM J. Sci. Stat. Comput., 3(3), 367-384. 1982
  • An Efficient Numerical Method for Highly Oscillatory Ordinary Differential Equations, Linda R. Petzold, SIAM J. Numer. Anal., 18(3), 455-479. 1981