Project SquID: Home

This site is currently a mess while it is being updated and reorganized.

This work is supported by the National Science Foundation under Grant No. DMS-0713812, Novel approaches to empirical force field models in molecular modeling via multidimensional scaling.

What is Project Squid?

Squid is short for Squared Interatomic Distance parameterization of empirical force fields. We are investigating an approach to the determination of protein structure based on energy minimization. Rather than parameterize the energy functional in terms of the Cartesian coordinates of the atoms, we parameterize the energy functional in terms of interatomic distances. By vastly expanding the dimension of the space in which we search, we may be able to avoid the prodigious number of local minimizers of no physical interest that frequently bedevil energy minimization.

Last updated at Thursday, 04-Jun-2009 19:59:42 EDT.
Copyright © Robert Michael Lewis. All Rights Reserved.