Particle-Based Stochastic Reaction-Diffusion Models in Biology

Videos from BIRS Workshop 14w5103

, University of Basel
- 09:42
Diffusion and noise in bistable systems
Watch video | Download video: 201411100909-Becskei.mp4 (80M)
, University of California, Irvine
- 10:24
Mechanics of diffusing surface molecules modulates T-cell receptor sensitivity
Watch video | Download video: 201411100946-Allard.mp4 (95M)
, George Mason University - Krasnow Institute for Advanced Study
- 12:03
Dynamical spatial models of signaling pathways underlying synaptic plasticity
Watch video | Download video: 201411101121-Blackwell.mp4 (109M)
, Uppsala University
- 14:59
Mesoscopic Stochastic Modeling: Diffusion Operators, Multiphysics Couplings, and Convergence
Watch video | Download video: 201411101417-Engblom.mp4 (112M)
, Virginia Tech
- 15:41
Multigrid Discretization Strategy on Discrete Stochastic Simulation of Reaction-Diffusion Systems
Watch video | Download video: 201411101459-Cao.mp4 (96M)
, University of Minnesota
- 17:19
Scaling properties of exact simulation algorithms for spatially discretized stochastic reaction-diffusion processes
Watch video | Download video: 201411101637-Sanft.mp4 (130M)
, Vanderbilt
- 09:37
Use of biological model-programs in PySB to explore and calibrate cell-death decisions
Watch video | Download video: 201411110902-Lopez.mp4 (90M)
, Uppsala Unversity
- 10:20
Accuracy of the Michaelis-Menten approximation when analyzing effects of molecular noise
Watch video | Download video: 201411110938-Hellander.mp4 (121M)
, Ohio State University - Mathematical Biosciences Institute
- 11:22
Asymptotic and numerical methods for metastable events in stochastic gene networks
Watch video | Download video: 201411111047-Newby.mp4 (98M)
, University of British Columbia
- 11:57
Random violence: A stochastic approach to cell cytotoxicity
Watch video | Download video: 201411111122-Coombs.mp4 (134M)
, Dan T. Gillespie Consulting
- 14:15
The Small-Voxel Tracking Algorithm
Watch video | Download video: 201411111333-Gillespie.mp4 (133M)
, University of California, Santa Barbara
- 14:55
Reaction rates for mesoscopic reaction-diffusion kinetics
Watch video | Download video: 201411111424-Hellander.mp4 (117M)
, University of Washington
- 15:57
A discrete stochastic model for reversible diffusion-controlled reactions
Watch video | Download video: 201411111523-DelRazoSarmina.mp4 (77M)
, Brown University
- 16:42
Dissipative particle dynamics simulations of polymer networks
Watch video | Download video: 201411111600-Matzavinos.mp4 (128M)
, Imperial College London
- 09:43
When we need particle-based reaction-diffusion simulations and when we don’t
Watch video | Download video: 201411120904-Shahrezaei.mp4 (106M)
, Fred Hutchinson Cancer Research Center
- 10:22
The Smoldyn simulator: overview, applications, and hybrid simulation
Watch video | Download video: 201411120944-Andrews.mp4 (103M)
, IST Austria
- 11:24
eGFRD in all dimensions
Watch video | Download video: 201411121043-Sokolowski.mp4 (133M)
, RIKEN Quantitative Biology Center
- 12:00
E-Cell System version 4.0: an integrated platform for single-particle-level
Watch video | Download video: 201411121124-Kaizu.mp4 (81M)
, Vanderbilt University
- 20:28
Clonal Heterogeneity vs. Stochastic Cell Fate Decisions in Cancer Response to Targeted Drugs
Watch video | Download video: 201411122004-Harris.mp4 (64M)
, Boston University
- 20:54
A dynamic lattice version of the First-Passage Kinetic Monte Carlo method
Watch video | Download video: 201411122029-Mauro.mp4 (71M)
, Case Western Reserve University
- 21:29
Stochastic Shielding: a Novel Approach to Simplifying Random Processes on Graphs
Watch video | Download video: 201411122057-Thomas.mp4 (101M)
, Freie Universitaet Berlin
- 09:45
Interacting-Particle Reaction-Diffusion (iPRD) Dynamics
Watch video | Download video: 201411130904-Noe.mp4 (142M)
, National Institutes of Health - Laboratory of Systems Biology
- 10:28
Novel analytical results for diffusion-influenced receptor-ligand reactions in two dimensions
Watch video | Download video: 201411130946-Prustel.mp4 (123M)
, Johns Hopkins University
- 11:27
Free-Propagator Reweighting Integrator for Single-Particle Reaction Diffusion Dynamics in Solution and on the Membrane
Watch video | Download video: 201411131052-Johnson.mp4 (93M)
, Boston University
- 12:05
Lattice Approximation of Spatially-Continuous Particle-Based Stochastic Reaction-Diffusion Models
Watch video | Download video: 201411131127-Isaacson.mp4 (144M)
, University of Oxford
- 14:11
Adaptive multi-level Monte Carlo methods
Watch video | Download video: 201411131336-Baker.mp4 (102M)
, University of Oxford
- 14:37
From Molecular Dynamics to Particle-based Stochastic Reaction-Diffusion Models
Watch video | Download video: 201411131412-Erban.mp4 (60M)
, University of Maryland, Baltimore County
- 15:51
Multiscale stochastic reaction-diffusion algorithms combining Markov chain models with SPDEs
Watch video | Download video: 201411131523-Kang.mp4 (73M)
, University of Oxford - Centre for Mathematical Biology
- 16:21
A PDE/compartment-based hybrid method for simulating stochastic reaction-diffusion systems
Watch video | Download video: 201411131552-Yates.mp4 (86M)