Journal PUBLICATION LIST

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Y Cao, L Petzold and E Seitaridou, Stochastic Simulation of Biochemical Systems: In Memory of Dan T. Gillespie's contributions, July 2019. Article Link
M Ahmadian, JJ Tyson and Y Cao, A stochastic model of size control in the budding yeast cell cycle, BMC Bioinformatics, vol 20 (Suppl 12):322, 2019 Article Link
M Chen and Y Cao, Analysis and remedy of negativity problem in hybrid stochastic simulation algorithm and its application, BMC Bioinformatics, vol 20 (Suppl 12):315, 2019. Article Link
M Chen, BD Amos, LT Watson, JJ Tyson, Y Cao, CA Shaffer, MW Trosset, C Oguz, G Kakoti, Quasi-Newton stochastic optimization algorithm for parameter estimation of a stochastic model of the budding yeast cell cycle, IEEE/ACM Transaction on Computational Biology and Bioinformatics, vol 16, issue 1, Jan-Feb 1, 2019. Article Link.
M Chen, S Wang, Y Cao (*), Accuracy analysis of hybrid stochastic simulation algorithm on linear chain reaction systems, Bulletin of Mathematical Biology, July 2018. Article Link.
F Li, M Chen, R Erban, and Y Cao (*), Reaction time for trimolecular reactions in compartment- based reaction-diffusion models, Journal of Chemical Physics 148, 204108 (2018). Article Link.
S Wang, M Chen, L Watson and Y Cao (*), Efficient implementation of the hybrid method for stochastic simulation of biochemical systems, Journal of Micromechanics and Molecular Physics, vol. 2, no. 2, page id: 1750006 [19 pages] , May 25th, 2017. Article Link and Arxiv Link.
M Chen, F Li, S Wang and Y Cao (*), Stochastic modeling and simulation of reaction-diffusion system with Hill function dynamics, BMC Systems Biology, vol. 11 (Suppl 3):21, 2017. Article Link
Fang, Y., Chen, X., Song, Z., Wang, T., Cao, Y. Modelling propagation of public opinions on Microblogging big data using sentiment analysis and compartmental models. International Journal on Semantic Web and Information Systems, 13(1), 11-27, 2017. Article Link
A stochastic spatiotemporal model of a response-regulator network in the Caulobacter crescentus cell cycle, F Li, K Subramanian, M Chen, JJ Tyson and Y Cao (*), Physical Biology, Volume 13, Number 3, 2016. Article Link
Y Pu, D. C. Samuels ; L. T. Watson ; Y. Cao (*), Randomness in the hybrid modeling and simulation of insulin secretion pathways in pancreatic islets, 13 October 2015, Tsinghua Science and Technology, Vol. 20, Issue: 5, 441 - 452. Article Link
Shuo Wang, Yang Cao (*), The abridgment and relaxation time for a linear multi-scale model based on multiple site phosphorylation, 11 Aug 2015, PLoS One. 2015 Aug 11;10(8):e0133295. Article Link
Ahn, T, Sandu, A,Watson, LT., Shaffer, CA, Cao, Y and Baumann, WT, A framework to analyze the performance of load balancing schemes for ensembles of stochastic simulations, International journal of parallel programming, Aug 2015; 43(4):597-630. Article Link
Fang Jin, Wei Wang, Liang Zhao, Edward Dougherty, Yang Cao, Chang-Tien Lu, Naren Ramakrishnan, Misinformation Propagation in the age of Twitter, IEEE Computer, Volume 47, Issue 12, pages 90-94, Dec 2014. Article Link
Y Cao and R Erban, Stochastic Turing patterns: analysis of compartment-based approaches, Bulletin of Math Biol, 44, pages 1-19, Nov 2014. Article Link
T Ahn, A Sandu, LT Watson, CA Shaffer, Y Cao, WT Baumann, A framework to analyze the performance of load balancing schemes for ensembles of stochastic simulations, International Journal of Parallel Programming, 01/2014; Article Link
Y Pu, S Lee, DC Samuels, LT Watson, Y Cao, The effect of unhealthy-cells on insulin secretion in pancreatic islets, BMC Medical Genomics, 6(Suppl 3):S6, 2013.
D Arendt and Y Cao, Evolutionary motifs for the automated discovery of self-organizing dimerautomata, Vol. 15, No. 7, 1250081 (27 pages), 2012.
D Arendt and Y Cao, Effective GPU acceleration of large scale asynchronous simulations on graphs, Advances in Complex Systems, Vol. 15, No. 4, 1250035, 2012.
P Kang, N Selvarasub, N Ramakrishnana, C Ribbensa, D Tafti, Y Cao, and S Varadarajana, Implementing modular adaptation of scientific software, Journal of Computational Science, Vol 3, Issues 1–2, 28–45, 2012.
Z Liu, Y Pu, F Li, CA Shaffer, S Hoops, JJ Tyson, and Y Cao, Hybrid modeling and simulation of stochastic effects on progression through the eukaryotic cell cycle, J. Chem. Phys. 136, 034105, 2012.
Z Song, Y Cao, DC Samuels, Replication pauses of the wild-type and mutant mitochondrial, PLoS Comput Biol 7(11): e1002287. doi:10.1371/journal.pcbi.1002287, 2011.
Wu S, Fu J, Cao Y, Petzold L, Michaelis-Menten speeds up tau-leaping under a wide range of conditions, J. Chem. Phys. 134, 134112, 2011.
David A. Ball, Tae-Hyuk Ahn, Pengyuan Wang, Katherine C. Chen, Yang Cao, John J. Tyson, Jean Peccoud and William T. Baumann, Stochastic exit from mitosis in budding yeast: Model predictions and experimental observations, Cell Cycle, volume 10, issue 6, pages 999 - 1009, 2011.
Yang Pu, Layne T. Watson, and Yang Cao, Stiffness detection and reduction in discrete stochastic simulation of biochemical systems, J. Chem. Phys. 134, 054105, 2011.
J Zhang, LT Watson, CA Beattie and Y Cao, Racial Basis Function Collocation for the Chemical Master Equation, Internat. J. Comput. Methods, vol. 7, pp. 477-498, 2010.
J. Zhang, L. T. Watson, and Y. Cao, A Modified Uniformization Method for the Solution of the Chemical Master Equation, Computers and Mathematics with Applications, 59(1), 573-584, 2010.
Jingwei Zhang, Layne T. Watson, Yang Cao, Adaptive aggregation method for the Chemical Master Equation International Journal of Computational Biology and Drug Design 2009 - Vol. 2, No.2 pp. 134 - 148, journal link
DT Gillespie, Y Cao, K Sanft, and LR Petzold, The subtle business of model reduction for stochastic chemical kinetics J. Chem. Phys. 130, 064103 (2009). journal link
Y Cao and D Samuels, Discrete Stochastic Simulation Methods for Chemically Reacting Systems, Methods in Enzymology, vol 454, pp. 115-140, 2009. journal link
K Wendelsdorf, Z Song, Y Cao and D Samuels, An Analysis of Enzyme Kinetics Data for Mitochondrial DNA Polymerase-gamma Inhibition by Nucleoside Reverse Transcriptase Inhibitor, PLos Computational Biology, vol 5, Jan 2009. journal link
(pdf file) D Barik, M Paul, W Baumann, Y Cao and J Tyson Stochastic Simulation of Enzyme-Catalyzed Reactions with Disparate Time Scales, Biophys. J. 95, 3563-3574, 2008. journal link
(pdf file) Liu Z and Cao Y, Detailed Comparison between StochSim and SSA, IET Systems Biology, 2, 334-341, 2008. journal link
(pdf file) Y. Cao and L. Petzold, Slow Scale Tau-leaping Method, Computer Methods in Applied Mechanics and Engineering, Volume 197, Issues 43-44, 1 August 2008. journal link
(pdf file) H. Li, Y. Cao, L. Petzold and D. Gillespie, Algorithms and Software for Stochastic Simulation of Biochemical Reacting Systems, Biotechnology Progress, 24(1), 56-61, 2008.
(pdf file) Cao Y, Gillespie D. and Petzold L., The adaptive explicit-implicit tau-leaping method with automatic tau selection, J. Chem. Phys. 126, 224101, 2007. journal link
(pdf file) D. T. Gillespie, L. R. Petzold, and Y. Cao, Comment on “Nested stochastic simulation algorithm for chemical kinetic systems with disparate rates”, J. Chem. Phys. 126, 137101, 2007. journal link
(pdf file) Petzold L, Li ST, Cao Y, Serban R, Sensitivity analysis of differential-algebraic equations and partial differential equations, COMPUTERS & CHEMICAL ENGINEERING 30 (10-12): 1553-1559, 2006.
Y. Cao, D. Gillespie and L. Petzold, Efficient Stepsize Selection for the Tau-Leaping Method, 124, 044109, J. Chem. Phys. 2006. (author version) (journal link)

Y. Cao and L. Petzold, Accuracy Limitations and the Measurement of Errors in the Stochastic Simulation of Chemically Reacting Systems, Journal of Computational Physics, 212(1), Pages 6-24, 10 February 2006. (author version) (journal link)

Y. Cao , D. Gillespie and L. Petzold, Avoiding Negative Populations in Explicit Tau Leaping, J. Chem. Phys. 123, 054104 (2005). (author version) (journal link)

Y. Cao, D. Gillespie and L. Petzold, Accelerated Stochastic Simulation of the Stiff Enzyme-Substrate Reaction, J. Chem. Phys., 123(14), 144917, 08 Oct 2005. (author version) (journal link)

Y. Cao and L. Petzold, Trapezoidal tau-lepaing formula for the stochastic simulation of biochemical systems, Proceedings of Foundations of Systems Biology in Engineering (FOSBE 2005), Pages 149-152. (author version)

Y. Cao, D. Gillespie and L. Petzold, Multiscale Stochastic Simulation Algorithm with Stochastic Partial Equilibrium Assumption for Chemically Reacting Systems, J. Comput. Phys., Volume 206, Issue 2, 1 July 2005, Pages 395-411. (author version) (Journal Link)

R. Gunawan, Y. Cao, L. Petzold and F. Doyle III, Sensitivity analysis of discrete stochastic systems, Biophys. J. 88: 2530-2540, 2005. (author version) (journal version)

M. Rathinam, L. Petzold, Y. Cao, D. Gillespie, Consistency and stability of tau leaping schemes for chemical reaction systems, SIAM Multiscale Modeling and Simulation, vol 4, 867-895, 2005. (pdf file)

Y. Cao, D. Gillespie and L. Petzold, The slow-scale stochastic simulation algorithm, J. Chem. Phys., 122(1), 014116, 2005. (author version) (journal link)

Y. Cao, L. Petzold, M. Rathinam, D. Gillespie, The numerical stability of leaping methods for stochastic simulation of chemically reacting systems, J. Chem. Phys. 121(24), 12169-12178, 2004. (author version) (journal link)

Y. Cao, H. Li and L. Petzold, Efficient formulation of the stochastic simulation algorithm for chemically reacting system, J. Chem. Phys. 121(9), pp. 4059-4067, 2004. (author version) (journal link)

Yang Cao and Linda Petzold, A Posteriori Error Estimation and Global Error Control for Ordinary Differential Equations by the Adjoint Method, SIAM J. Scientific Computing, 26(2), 359-374, 2004. (pdf file)

Yang Cao and Linda Petzold, An error estimate for matrix equations, Applied Numerical Mathematics, 50(3-4), 395-407, 2004. (author version) (journal link)

M. Rathinam, Y. Cao, L. Petzold, D. Gillespie, Stiffness in Stochastic Chemically Reacting Systems: The Implicit Tau-Leaping Method, J. Chemical Physics, 119(24), p12784-94, 2003. (author version) (journal link)

(pdf file) 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 and Simulation in Chemical Engineering, Coimbra, Portugal, 2003.

Yang Cao and Linda Petzold, A subspace error estimate for linear systems(PS file), SIAM J. Mat. Anal. Appl., 24(3), 787-801, 2003.

(pdf file)Yang Cao, Shengtai Li, Linda Petzold and Radu Serban, Adjoint sensitivity analysis for differential-algebraic equations: the adjoint DAE system and its numerical solution, SIAM J. Sci. Comput. 24(3), 1076--1089, 2002,

(pdf file)Yang Cao, Shengtai Li and Linda Petzold, Adjoint Sensitivity Analysis for Differential-Algebraic Equations: Algorithms and Software, J. Comp. Appl. Math. 149 (1), 171--191, 2002.

Sensitivity Analysis and Design Optimization of Differential-Algebraic Equation Systems(PS file). 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, 2001.

Yang Cao, Qing-Yang Li, Multistep discretization of Index 3 DAEs. Journal of Computational Mathematics, vol.18, (no.3), ICMSEC Chinese Acd. Sci, May 2000. p.325-36.

Yang Cao, Qingyang Li, Predictor-corrector formula for solving index-2 differential-algebraic equations. Mathematica Numerica Sinica, vol.21, (no.1), Math. , , 1999. p.65-74.

Yang Cao and Qingyang Li, Highest order multistep formula for solving index-2 differential algebraic equations, BIT, vol 38, no.4, 1998

Yang Cao and Qingyang Li, A-stable explicit nonlinear Runge-Kutta methods, Tsinghua Science & Technoloty, 1998

Yang Cao and Qingyang Li, Nonlinear Runge-Kutta methods for solving differential-algebraic equations. Chinese J. Numer. Math. Appl. 20, 1998, p.75--85.

Conference PUBLICATION LIST

M Ahmadian, JJ Tyson, and Y Cao, A Stochastic Model of Size Control in the Budding Yeast Cell Cycle, in the Fifth International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC 2018), Washington, D.C., August 29th, 2018.
Minghan Chen and Yang Cao, Analysis and Remedy of Negativity Problem in Hybrid Stochastic Simulation Algorithm and its Application, in the Fifth International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC 2018), Washington, D.C., August 29th, 2018.
M Ahmadian, S Wang, JJ Tyson, and Y Cao, Hybrid ODE/SSA Model of the Budding Yeast Cell Cy- cle Control Mechanism with Mutant Case Study, Proceeding ACM-BCB ’17: Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics, Pages 464-473, Boston, Massachusetts, USA August 20 - 23, 2017.
S Wang, M Chen and Y Cao, Hybrid ODE/SSA methods and the cell cycle model, the proceeding of the 14th International Conference of Numerical Analysis and Applied Mathematics (ICNAAM), Rhode Island, Greece, Sep 19-25, 2016, published in AIP Conference Proceedings 1863, 500001 (2017)
A hybrid stochastic model of the budding yeast cell cycle control mechanism, Proceeding BCB ’16: Proceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, pages 261-270, Seattle, WA, USA October 02 - 05, 2016.
M Chen, F Li, S Wang and Y Cao, Stochastic modeling and simulation of reaction-diffusion sys- tems with Hill function dynamics, in the Third International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC 2016), published in proceeding BCB ’16: Pro- ceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, pages 525-526, Seattle, WA, USA October 02 - 05, 2016
M. Chen, F. Li, K. Subramanian, J. Tyson and Y. Cao, Two-dimensional model of bipolar PopZ polymerization in Caulobacter crescentus, proceedings of ACM BCB 2015, the 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, Atlanta, GA, USA. September 0912, 2015, pages 37-46.
Fei Li, Yang Cao, Multigrid Discretization Method for PopZ Polarization in Caulobacter Cell Cycle, The IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2013), Dec 18-21, 2013, Shanghai, China.
Fang Jin, Edward Dougherty, Parang Saraf, Yang Cao, and Naren Ramakrishnan, Epidemiological Modeling of News and Rumors on Twitter, The 7thWorkshop on Social Network Mining and Analysis (SNA KDD), Aug 2013, Chicago, IL (Best paper award).
Shuo Wang and Yang Cao, Efficient Implementation of the Hybrid Method for Stochastic Simula- tion of Biochemical Systems, 2012 ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB), pages 305-312, Oct, 2012, Orlando, FL.,
Y Pu, S Lee, DC Samuels, LT Watson1, Y Cao, The effect of unhealthy-cells in synchronized insulin secretion, 2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Editors: Jean Gao, Reda Alhaij, Werner Dubitzky, Lyle Ungar, Cathy Wu, Anastasia Christianson, Michael Liebman Xiaohua Hu, Pages 416-419, 4-7 October 2012, Philadelphia, PA.
Zhen Liu and Yang Cao, Approximation of a Multi-Scale Model Based on Multiple Site Phosphoryla- tion, 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW), Editors: Jean Gao, Reda Alhaij, Werner Dubitzky, Lyle Ungar, Cathy Wu, Anastasia Christianson, Michael Liebman Xiaohua Hu, Pages 9-16, 4-7 October 2012, Philadelphia, PA.
D Arendt and Y Cao, Elastic Dimer Automata: Discrete, Tunable Models for Complex Systems, Proc. 4th Cellular Automata, Theory and Applications Workshop (*A-CSC’12), Hamid R. Arabnia, William Spataro, Lou D’Alotto, James F. Nystrom, Ashu M. G. Solo, George A. Gravvanis (Eds), Las Vegas, Nevada, July 2012, 62-68.
D Arendt and Y Cao, GPU Acceleration of Many Independent Mid-Sized Simulations on Graphs, Proc. 4th Cellular Automata, Theory and Applications Workshop (*A-CSC’12), Hamid R. Arabnia, William Spataro, Lou D’Alotto, James F. Nystrom, Ashu M. G. Solo, George A. Gravvanis (Eds), Las Vegas, Nevada, July 2012, 69-75.
F Li and Y Cao, Proceedings of the 2012 International Conference on Bioinformatics and Computa- tional Biology (Editors: Hamid R. Arabnia, Quoc-Nam Tran Associate Editors: Andy Marsh, Ashu M. G. Solo), Las Vegas, Nevada, USA, 2012, 305-311.
Y Pu, LT Watson and Y Cao, Stiffness Detection and Reduction in Discrete Stochastic Simulation of Biochemical Systems, in Proc. 2010 Spring Simulation Multiconference, High Peformance Computing Symp., A. Sandu, L. Watson, and W. Thacker (eds.), Soc. for Modelling and Simulation Internat., Vista, CA, 2010, 41–48.
Yang Pu, Saangho Lee, David C. Samuels, Layne T. Watson, Yang Cao. Hybrid Modeling and Simulation of Insulin Secretion Pathway in Pancreatic Islets, in Proceeding of 2010 IEEE International Conference on Bioinformatics and Bioengineering, IEEE Computer Society, 2010, Philadelphia, PA, USA, Page 156 161, ISBN 978-0-7695-4083-2.
Z Liu, C.A. Shaffer, U.J. Mobassera, L.T. Watson, and Y. Cao, Multistate Modeling and Simulation for Regulatory Networks, Proceedings of the 2010 Winter Simulation Conference, B. Johansson, S. Jain, J. Montoya-Torres, J. Hugan, and E. Ycesan, eds., December 2010, 631-642.
Yang Pu, Saangho Lee, Zhen Liu, David C. Samuels, Layne T. Watson, Yang Cao, Medeling of Metabolic Oscillations in Mitochondria and their Coupling in a Cell, Proceedings of the 2009 In- ternational Conference on Bioinformatics & Computational Biology(BIOCOMP 2009), Hamid R. Arabnia and Mary Qu Yang(Editors), pg 620 625, Las Vegas, Nevada, July 2009.
Z Liu, Y.Pu, Y. Cao, A Hybrid Method Combining Improved StochSim with SSA for Solving Sys- tems with Multi-State Species, Proceedings of the 2009 International Conference on Bioinformatics & Computational Biology(BIOCOMP 2009), Hamid R. Arabnia and Mary Qu Yang(Editors), pg 626 631, Las Vegas, Nevada, July 2009.
J. Zhang, L. T. Watson, and Y. Cao, “Radial basis function collocation for the chemical master equation”, in Proc. 2009 Internat. Conf. on Bioinformatics and Computational Biology, H. R. Arabnia and M. Q. Yang (eds.), CSREA Press, USA, 2009, 295–300.
J. Zhang, M. Sosonkina, L. T. Watson, and Y. Cao, Parallel solution of the chemical master equation, {\sl Proc. 2009 Spring Simulation Multiconference: HPC}, G. Wainer, M. Chinni, P. Roman, H. Rajaei, B. Zeigler, and C. Ribbens (eds.), Soc. for Modeling and Simulation Internat., San Diego, CA, 2009, 563--567.
T.-H. Ahn, P. Wang, L. T. Watson, Y. Cao, C. A. Shaffer, and W. T. Baumann, Stochastic cell cycle modeling for budding yeast, {\sl Proc. 2009 Spring Simulation Multiconference: HPC}, G. Wainer, M. Chinni, P. Roman, H. Rajaei, B. Zeigler, and C. Ribbens (eds.), Soc. for Modeling and Simulation Internat., San Diego, CA, 2009, 569--574.
P Kang, Y Cao, N Ramakrishnan, CJ Ribbens and SV Jan, Modular Implementation of Adaptive Decisions in Stochastic Simulations, ACM SAC 2009, Honolulu, Hawaii, 2009.
Y Cao, The stiffness in discrete stochastic simulation of chemically reacting systems, proceedings of the 5th Workshop on Computation of Biochemical Pathways and Genetic Networks, Heidelberg, Sep, 2008.
J Zhang, L Watson and Y Cao, Adaptive Aggregation Method for the Chemical Master Equation, 8th IEEE International Conference on BioInformatics and BioEngineering (BIBE), August 2008.
Y Cho, N Ramakrishnan, and Y Cao, Reconstructing Chemical Reaction Networks: Data Mining meets System Identification, ACM SIGKDD 2008, Las Vegas, Aug, 2008.
J Zhang, L Watson, M Sosonkina, and Y Cao, Analysis of Goldbeter-Koshland Switch Using the Chemical Master Equation, WORLDCOMP'08 Congress, Las Vegas, July, 2008.
T Ahn, Y Cao, and L Watson, Stochastic Simulation Algorithms for Chemical Reactions, WORLDCOMP'08 Congress, Las Vegas, July, 2008.
P Wang, R Randhawa, C Shaffer, Y Cao, and W Baumann, Converting Macromolecular Regulatory Models from Deterministic to Stochastic Formulation ({\bf Best paper award}), High Performance Computing and Simulation Symposium (HPCS 2008).
Y. Cao and L. Petzold, Trapezoidal tau-lepaing formula for the stochastic simulation of biochemical systems, Proceedings of Foundations of Systems Biology in Engineering (FOSBE 2005), Pages 149-152, Aug, 2005.

INVITED TALKS

Hybrid stochastic modeling and simulation algorithms, at the Mathematics Institute of Huazhong University of Science and Technology (HUST), July 2nd, 2018.
Accuracy Analysis of Hybrid Stochastic Simulation Algorithms, Invited talk for the Annual Meeting of the Canadian Society of Applied and Industrial Mathematics (CAIMS 2018), Toronto, Canada, June 4-7, 2018.
Hybrid stochastic modeling of the budding yeast cell cycle control mechanism, at the Department of Applied Mathematics and the Centre for Computational Mathematics, University of Waterloo, Nov 9th, 2017.
Randomness and stochastic model and simulation of biochemical systems, at the Department of Physics, Huazhong Agriculture University, Wuhan, Hubei, China, June 18th, 2017.
Current Progress in Systems Biology, at College of Computer and Information Sciences, Sanxia University, Yichang, Hubei, China, June 8th, 2017.
Hybrid stochastic model and simulation of the budding yeast cell cycle control mechanism, A3-NIMS Joint Workshop on Interdisciplinary Research Connecting Mathematics and Biology, NIMS, KAIST, Korea, May 13th, 2017.
Multiscale Methods and Challenges in Stochastic Modeling and Simulation of Biological Systems, University of California at Riverside, March 3rd, 2017.
Why it is dangerous to introduce foreign species into our community?, KidTech University program, Virginia Tech, April 2nd, 2016.
Caulobacter Cell Cycle and Challenges in Stochastic Simulation of Spatially Inhomogeneous Systems, Institute for Operations Research and the Management Science (INFORMS), ISE Department, Vir- ginia Tech, Oct 14th, 2015.
Gillespie’s Algorithm on Reaction Diffusion Systems, Computational/Mathematical Biology Seminar, Mathematical Institute, Oxford University, Oxford, United Kingdom, June 13th, 2014.
Multi-scale Stochastic Simulation, Mathematics Department, UC Irvine, Oct 7th, 2013.
Multiscale challenges and the hybrid method for stochastic simulation of biochemical systems, Mathematical Institute, Oxford University, Oxford, United Kingdom, Feb 20, 2013.
Multiscale Challenge in Stochastic Simulation of Chemically Reacting Systems, Krasnow Institute, George Mason University, Fairfax, VA, September 24, 2012.
Tau-leaping Methods for Large-Scale Biochemical Systems, Math department, Huazhong University of Science and Technology, Wuhan, China, June 15, 2010.
Stochastic Simulation of Biochemical Systems, Computer Science department, Sichuan University, Chengdu, China, June 3, 2010.
Multiscale Features in Stochastic Simulation of Biochemical Systems, Institute of Systems Science, Beijing, China, May 26, 2010.
Stochastic Simulation Methods for Multiscale Biochemical Systems, short course (five lectures) in Math department at Peking University, Beijing, China, May 15-29, 2010.
Stiffness Detection and Reduction in Discrete Stochastic Simulation of Biochemical Systems, Math department at Tsinghua University, Beijing, China, May 24, 2010.
Stiffness in Stochastic Simulation of Multiscale Biochemical Systems, Math department at Courant Institute, New York University, Mar 2010.
Stiffness in discrete stochastic simulation for chemically reacting systems, 5th Workshop on Computation of Biochemical Pathways and Genetic Networks, Heldelberg, Germany, Sep. 22-23, 2008.
Multiscale Discrete Stochastic Simulation for Biochemical Systems, NDSSL seminar, VBI, Virginia Tech, 2007.
Y. Cao, Multiscale discrete stochastic simulation for biochemical systems, Michigan State University, March, 2007.
Y. Cao, Slow-scale stochastic simulation algorithm, Workshop on Stochastic Simulation Methods, Princeton University, Oct. 2006.
Y. Cao, Application and software tools in discrete stochastic modeling and simulation for biochemical systems, ICMSB06, LMU Biozentrum, Munich, Germany. 31 July - 4 August 2006.
Y. Cao, Multiscale stochastic simulation for biochemical systems, Huazhong University of Science and Technology, July 2006.
Y. Cao, Stochastic Simulation Algorithms for Multiscale Problems, Workshop on Stochastic Dynamics in Complex Networks, Peking University, June 2006 .
Y. Cao, Multiscale stochastic simulation for biochemical systems, Tsinghua University, June, 2006.