[Brown CS Talks] Brown CS Seminar: Russell Schwartz in Lubrano on 4/8/02 at noon

[talks-admin@list.cs.brown.edu]

			      CS Seminar
		  
		  The Department of Computer Science
			   BROWN UNIVERSITY

			      
			       presents

			   Russell Schwartz
			     
			   Celera Genomics

				
		    Monday, April 8, 2002 at noon
	       Lubrano Conference Room (CIT 4th floor)
	       Refreshments will be served at 11:45 am

			       
   Applications of Modeling and Simulation in Computational Biology


			       Abstract

This talk will survey a variety of uses of modeling and simulation in
understanding biological systems. The first part of the talk will
cover applications of the local rules dynamics model, a simulation
model which combined principles from the earlier local rules model of
Berger et al. with techniques from molecular dynamics. Both models
were originally developed to study virus protein shell self-assembly,
although they were later applied to several other self-assembly
systems including protein aggregates and amyloids. The second part of
the talk will examine the use of a discrete lattice simulation model
for studying sequence predictors of protein aggregate formation. It
will also look at a statistical model of amino acid word distributions
applied to protein sequence databases in order to confirm a prediction
derived from the lattice model. The third part of the talk will
examine a graph theoretic model and some associated combinatorial
optimization problems formulated to aid in understanding the haplotype
structure of sequenced genomes. For each type of system covered, we
will examine the chosen methods of model building, the motivations for
selecting them, and their specific applications.


		     Host:  Professor Steve Reiss