patrick smadbeck

I am a postdoctoral researcher since moving to London from the United States in September 2014. My current project focuses on the use of coalescent theory for applications in tissue growth dynamics in developing biological systems. My general interests lie in the understanding of biologically inspired stochastic systems through modeling, in particular the use of agent-based models.

Publications

A closure scheme for chemical master equations
P Smadbeck and YN Kaznessis
Proceedings of the National Academy of Sciences 110.35 (2013): 14261-14265.

Efficient moment matrix generation for arbitrary chemical networks
P Smadbeck and YN Kaznessis
Chemical Engineering Science 84 (2012): 612-618.

Stochastic model reduction using a modiffied Hill-type kinetic rate law
P Smadbeck and YN Kaznessis
The Journal of Chemical Physics 137.23 (2012): 234109.

Chemical master equation closure for computer-aided synthetic biology
P Smadbeck and YN Kaznessis
Computational Methods in Synthetic Biology, Springer New York, (2015), 179-191.

Solution of chemical master equations for nonlinear stochastic reaction networks
P Smadbeck and YN Kaznessis
Current Opinion in Chemical Engineering 5 (2014): 90-95.

Chapter 7: Computer Aided Design of Synthetic Biological Constructs with the Synthetic Biology Software Suite
Synthetic Biology, Elsevier (2013). (3rd Author)

Conferences and Presentations

  • Mathematical and Statistical Aspects of Biology (MASAMB), 2015, Helsinki, Finland
    - Coalescent Theory in Tissue Growth Modeling with Lineage Tracing Applications
  • American Institute of Chemical Engineering Annual Meeting 2014, Atlanta, GA
    - Eigenvalue Analysis of Stochastic Chemical Reaction Networks Using Moment Closure
    - Simulation and Analysis of Biologically Inspired Chemical Networks Using Moment Closure
  • American Institute of Chemical Engineering Annual Meeting 2013, San Francisco, CA
    - Zero-Information Closure, Novel Stochastic Analysis for Chemical Simulation
    - Stochastic Analysis of Reaction Networks Using Moment Closure
  • American Institute of Chemical Engineering Ammual Meeting 2012, Pittsburgh, PA
    - Efficient Generation of Moment-Equations for Stochastic Simulation and Moment-Closure
    - Splitting Hill-Type Kinetics: Reduced, Modular, Stochastic Simulations
  • American Institute of Chemical Engineering Annual Meeting 2011, Minneapolis, MN
    - Accurate Reduction Methods for Stochastic Chemical Kinetic Models