[IEEE-bhpjobs] Nov 30 Seminar - Duke Inst for Genome Sciences & Policy

[esther L]

Duke Institute for Genome Sciences & Policy
Center for Bioinformatics & Computational Biology
Seminar Series

Wednesday, November 30, 2005 11:00am
Schiciano Auditorium, Fitzpatrick Center - CIEMAS Bldg.
Jie Liang, PhD
Associate Professor, Department of Bioengineering
University of Illinois at Chicago

“Predicting Protein Functions through Evolutionary Models of
Structural Binding Surfaces”

Predicting biological roles of proteins and classifying them by their 
functions are challenging tasks, as global protein sequence and 
structure similarities are often unreliable for functional inference. 
Protein plays its role by interacting with other molecules, and local 
binding surfaces contain direct useful information. To identify locally 
similar binding surfaces and to assess their biological similarity, 
scoring matrix such as PAM and BLOSUM are not suitable, because residues 
on protein functional surfaces experience different selection pressure 
than residues in folding core. We develop methods for estimating 
replacement rates of residues based on a continuous time Markov model 
using Bayesian Markov chain Monte Carlo. Combined with geometrically 
computed libraries of millions of binding surfaces using alpha shape, we 
show our method can predict protein functions from structures with 
sensitivity and specificity. Our examples include proteins from 
structural genomics with unknown biological roles and with only 
hypothetical sequence homologs. We further discuss how to construct 
models to account for possible cross-reactivities of proteins to 
multiple substrates, and how to develop canonical models of binding 
surfaces for proteins of different functional classes.

-------- Original Message --------
Subject: November 30 - SEMINAR
Date: Wed, 16 Nov 2005 15:09:50 -0500
From: Miriam Phillips <miriam.phillips at duke.edu>
To: Bioinfo at duke.edu

Everyone,

Our last seminar of this semester is scheduled for November 30th, with Dr.
Jie Liang from the University of Chicago at Illinois.
www.uic.edu/~jliang

Please mark your calendars.  We appreciate your support.



Miriam Phillips
Center for Bioinformatics & Computational Biology
Institute for Genome Sciences & Policy
Duke University
919.684.0884 - 919.668.2465 (fax)


-- 
-- Esther L.,  esther-L at mailsnare.net or esther-L at alumni.virginia.edu
Speaking only for myself.
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