Tue 19 Oct. 2010, 17:20
Title: F. Zhao, J. Peng, J. Debartolo, K. F. Freed, T. R. Sosnick, J. Xu. A Probabilistic Graphical Model for Ab Initio Folding.
Speaker: Erik Birčák
Despite significant progress in recent years, ab initio folding is still one of the most challenging problems in structural biology. This paper presents a probabilistic graphical model for ab initio folding, which employs Conditional Random Fields (CRFs) and directional statistics to model the relationship between the primary sequence of a protein and its three-dimensional structure. Different from the widely-used fragment assembly method and the lattice model for protein folding, our graphical model can explore protein conformations in a continuous space according to their probability. The probability of a protein conformation reflects its stability and is estimated from PSI-BLAST sequence profile and predicted secondary structure. Experimental results indicate that this new method compares favorably with the fragment assembly method and the lattice model.