Workshop Date: July 31 - August 1, 2003  

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IBM Life Sciences
 


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Workshop Agenda
This workshop does not have a registration fee.

Below you will find links to available workshop abstracts as well as links to relevant subject information under each talk. Additional links will be added when they become available. Some workshop abstracts may be in Portable Document Format (PDF) format.
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IBM-BNL Blue Gene Science Workshop
Brookhaven Laboratory on Long Island, New York
Date: July 31 August 1, 2003 ( workshop has ended )
Web: http://www.bnl.gov/CompBio/

Talks will take place in the Physics "Large Seminar Room" in building 510.



Thursday, July 31
Day 1
 
   
8:00 am - 8:30 am

8:30 am - 8:45 am
 

8:45 am - 9:15 am
 


9:15 am - 9:45 am
 

9:45 am - 10:00 am
 

10:00 am - 10:15 am

10:15 am - 10:30 am
 

10:30 am - 11:15 am
 


11:15 am - 12:00 pm
 


12:00 pm - 12:45 pm
 

12:45 pm - 1:30 pm

1:30 pm - 1:45 pm
 

1:45 pm - 2:30 pm
 


2:30 pm - 3:15 pm



3:15 pm - 3:30 pm

3:30 pm - 4:15 pm
 


4:15 pm - 5:00 pm


5:30 pm

7:00 pm

Continental Breakfast

Welcome and Opening Remarks
Praveen Chaudhari, BNL

Computing and Biology
Ari Patrinos, USDOE
Abstract (MS Word)

Blue-Gene Overview
Bill Pulleyblank, IBM

Massively Parallel Computing at BNL
Jim Davenport, BNL

Break                

Protein Folding and Force Fields
Bruce Berne, Columbia  Univ. (Chair)

High Resolution Modeling of Proteins:
Force Fields, Solvation Models, Sampling Algorithms, and Validation

Richard Friesner, Columbia Univ.

Improved Treatment of Protein Backbone Conformational Energetics in the CHARMM All-atom Force Field
Alex MacKerell, U. Maryland                                              

Elements of the Blue Gene Science Program
Jed Pitera, IBM

Lunch

Computational Systems Biology
Chris Sander, Sloan Kettering (Chair)

The Virtual Cell Project
Leslie Loew, U. Conn. Health Center
Relevant Talk Information

Perfect adaptation and receptor cross talk: some recent results in modeling bacterial chemotaxis pathway
Dr. Yuhai Tu, IBM Computational Biology Center

Break

Space-time Computing with Calcium at Dendritic Spines
Terry Sejnowski, Salk Institute
Abstract and Relevant Talk Information

Biochemical Computation of the Mammalian Cell
Ravi Iyengar, Mount Sinai

Reception and Posters

Dinner (pre-registered only)

   

   
Friday, August 1
Day 2
 
   
8:00 am - 8:30 am

8:30 am - 8:45 am
 

8:45 am - 9:30 am

 

9:30 am - 10:15 am
 


10:15 am - 10:30 am

10:30 am - 11:15 am
 



11:15 am - 11:30 am
 

11:30 am - 12:15 pm
 


12:15 pm - 1:30 pm

1:30 pm - 2:15 pm
 


2:15 pm - 3:00 pm
 

3:00 pm - 3:15 pm

3:15 pm - 4:00 pm

4:00 pm

Continental Breakfast

Data Mining for High Throughput Biology
Gustavo Stolovitzky, IBM (Chair)

Extracting Biological Information from Genome-Scale
Experimental Data

David Botstein, Princeton

Computational Challenges for Genomic Medicine Research
Pablo Tamayo, MIT
Groups Website

Break

Computational Proteomics
Mark Gerstein, Yale
Relevant Information - http://pseudogene.org | http://bioinfo.mbb.yale.edu | http://genecensus.org

Large Scale Biological Simulation
Mike Pitman, IBM (Chair)

G-protein Coupled Membrane Receptors in Action
Klaus Gawrisch, NIH
Abstract | Affiliation Information

Lunch

Large Scale Molecular Dynamics Simulations of Membrane Proteins
Emad Tajkhorshid, Illinois
Abstract | Relevant Research Information

Simulation of Fusion and Protein Translacation in Cell Membranes
Richard Pastor, FDA

Break

Wrap up

Sundown

 

Last update on: July 22, 2004