Tutorial 1

8/30 9:15 - 11:45, Hewlett 101

Advanced Modeling, Simulation, and Data Analysis Using Virtual Cell and Virtual Microscopy

Ion I. Moraru, James C. Schaff and Leslie M. Loew

Center for Cell Analysis and Modeling, University of Connecticut Health Center.

Recent years have seen a proliferation of technologies that aim to gather quantitative data in live cells such as molecular concentration distributions, diffusion rates, and reaction rates. Highly specialized algorithms and software are required both for proper analysis of experimental data and for building predictive models of molecular interactions. This tutorial will cover intermediate and advanced topics related to kinetic models and simulations of intracellular reaction networks in 2D and 3D spatial geometries. It is assumed that the participants will have a basic understanding of quantitative aspects of fluorescent microscopy and of biochemical principles such as rate laws and mass action. A wide spectrum of examples will be presented. On the one hand, we will show how microscopy data can be used in conjunction to molecular biology and biochemistry data to generate mechanistic and predictive models of spatial signaling and regulation in eukaryotic cells. The Virtual Cell (VCell; http://vcell.org/) platform will be used, which is a distributed framework for building, sharing, and publishing spatially-resolved kinetic models and simulations. On the other hand, we will show how kinetic simulations are useful to properly analyze experiments such as FRAP and FLIP, using VCell-based applications part of the Virtual Microscopy suite. We will present the use of stochastic and deterministic models, as well as the use of more complex protocols involving advection/flow and combination of reaction-diffusion models with electrophysiology. We will also discuss practical issues regarding experimental methods and software platforms and applications.

Registration Registered attendees please register for this Tutorial.