Systems Biology for Biochemists - Program

Systems Biology for Biochemists
An ASBMB Sponsored Special Symposium
October 22-25, 2009
Lake Tahoe City, Lake Tahoe, California
Organizer: Arcady Mushegian (Stowers Institute for Medical Research)


Last updated: 11.04.09

** Click on a speaker name (highlighted in blue) to view presentation


THURSDAY, October 22

Opening Plenary Sessions

5:30 p.m.      Dinner

7:00 p.m.      Eugene Koonin , NCBI, NIH
                       Evolutionary Systems Biology: Foundation for a Post-modern Synthesis?

8:05 p.m.      Gregory Petsko, Brandeis University
                       The Systems Biology of Neurodegenerative Disease

9:00 p.m.      Opening Reception

FRIDAY, October 23

Reconstruction of Ancestral and Minimal Metabolic Pathways 

8:00 a.m.      Breakfast

9:00 a.m.      Vadim Gladyshev
, Brigham and Women's Hospital and Harvard Medical School                      
                       Comparative Genomics of Trace Elements: Insights into Redox Regulation and Genetic Code

9:35 a.m.      Eric Gaucher , Georgia Institute of Technology
                       Computational reconstruction and experimental resurrection of ancient genes

10:10 a.m.     Coffee Break

10:40 a.m.     Mikkel Algire 
, J. Craig Venter Institute
                        From Oligos to Organisms

11:15 a.m.     Valérie de Crécy-Lagard, University of Florida
                         What is the Minimal Number of tRNA Modifications Required for Life?

12:00 p.m.     Lunch and Free Time

3:30 p.m.       Armen Mulkidjanian 
, University of Osnabrueck
                       Tracing the Origin of First Cellular Systems in the Primeval Zinc World

3:45 p.m.       Frederic Pio, Simon Fraser University                        
                        Predicting Protein Complexes from Protein-Protein Interaction Data: A Core Attachment

4:00 p.m.       Eugene Koonin , National Institutes of Health
                        Evolution Rate as a Function of Protein Folding Robustness

4:15 p.m.       Coffee Break

4:45 p.m.       Georgy Karev , National Institutes of Health
                        A Modified Eigen Model for Molecular Evolution: Does the Error Catastrophe 
                        Threshold Really Exist?

5:00 p.m.       llya Mazo , Ariadne
                        Knowledge Network Approach: Pathways and Biomarkers

5:15 p.m.       Peter Karp , SRI International
                        Metabolic Network Analysis Algorithms in Pathway Tools

6:00 p.m.       Dinner

8:00 p.m.       Reception and Poster Presentations




SATURDAY, October 24

Large-scale Protein Structure Determination—Was It Worth the Effort?

8:00 a.m.      Breakfast

9:00 a.m.       Nick Grishin
, UT Southwestern - HHMI
                        Myths, Lies and Truths About Structural Genomics

9:35 a.m.       John-Marc Chandonia, Lawrence Berkeley National Laboratory
                        SCOP and Quantifying the Impact of Structural Genomics

10:10 a.m.     Coffee Break

10:40 a.m.     Aled Edwards 
, University of Toronto
                         Large-scale Protein Structure Determination- Was It Worth the Effort?

11:15 a.m.     Alexey Murzin , MRC Laboratory of Molecular Biology
                        Structural Classification of Proteins and Structural Genomics: New Relationships 
                        and Functional Insights

12:00 p.m.     Lunch and Free Time

3:30 p.m.       Alexandre Morozov,
Rutgers University
                        Evolutionary Origin of Correlated Mutations in Protein Sequence Alignments

3:45 p.m.       Warren DeLano, DeLano Scientific LLC
                        PyMOL: An Open-Source Tool for Visualizing Systems in Structural Biology

4:00 p.m.       Ambrish Roy, University of Kansas
                        Large Scale Benchmarking of Protein Function Prediction Using Modeled Structures

4:15 p.m.       Coffee Break

4:45 p.m.       Vlad Petyuk,
Pacific Northwest National Lab
                        What Mass Spectrometry Based Proteomics Can Do For Systems Biology?

5:00 p.m.       Anthony Michael, Institute of Food Research
                        The Inordinate Diversity of Polyamine Biosynthetic Strategies Revealed by Comparative and 
                        Functional Genomics

5:15 p.m.       Menzur Dlakic, Montana State University
                        Cataloging Structurally Uncharacterized Protein Families

6:00 p.m.       Dinner and Free Time




SUNDAY, October 25

Gene and Protein Networks—Do They Tell Us Anything about Metabolism and Biochemical Evolution?

8:00 a.m.      Breakfast

9:00 a.m.       Frederick Roth 
, Harvard University
                        Systematic Analysis of Genetic Networks in S. cerevisiae

9:35 a.m.       Andrey Rzhetsky, University of Chicago
                        Text-mining, modeling, pathways, and human disease

10:10 a.m.     Coffee Break

10:40 a.m.     Arcady Mushegian , Stowers Institute for Medical Research
                        Biological Networks: Where Do the Edges Come From?

11:15 a.m.     David Sprinzak, California Institute of Technology
                        An Ultrasensitive Switch by Mutual Inactivation of Signaling Molecules: A New Design 
                        Principle in Intercellular Genetic Circuits

12:00 p.m.     Lunch & Shuttle Departures