TABLE OF CONTENTS
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CBM's Home Web Page
Biological Networks Symposium/Annual Retreat Talk Schedule
External Advisory Board Members
Advisory Committee Members
Biological Networks Symposium Agenda
Building a
Quantitative Model of Metabolic Fluxes During Oilseed Metabolism.............................. 1
John
Ohlrogge/Joerg Schwender, Department of Plant Biology, MSU
Discovery of
Novel Metabolic Networks...................................................................................... 2
Vassily
Hatzimanikatis, Department of Chemical Engineering, Northwestern
University
Systems Biology
of the Drosophila Blastoderm.............................................................................. 3
John
Reinitz, Department of Applied Math and Statistics, SUNY at Stony Brook
Dynamics of the
Immune Response to Infection with M. Tuberculosis............................................. 4
Denise
Kirschner, Department of Microbiology and Immunology, University of
Michigan
The Structure
of Social and Biological Networks........................................................................... 5
Mark Newman,
Department of Physics, University of Michigan
Neural
Networks, Brain Rhythms and Computational Neuropharmacology.................................... 6
Péter
Érdi, Center for Complex System Studies, Kalamazoo
College
Gene Regulatory
Networks in Bacteria.......................................................................................... 7
Lee
Kroos, Department of Biochemistry and Molecular Biology, MSU
Incorporation
of Computational Approaches into Mechanistic and Predictive Toxicology................ 8
Tim
Zacharewski, Department of Biochemistry & Molecular Biology, MSU
3. Predicting Protein-Protein Interactions from Sequence Data.................................................. 11
1. Dynamics of CD8+ T Cells in HIV-1 Disease
Progression.................................................... 13
2. Simulated Evolution of Consensus Bacterial
Promoters from Trinucleotide
Polymers.............................................................................................................................. 14
3. Temporal Specificity of Mechanisms Used by Mycobacterium
tuberculosis to Inhibit
Antigen Presentation............................................................................................................. 15
4.
Comparisons of Codon Usage Reveal
Microbial Life History Adaptations............................. 16
5. A Metapopulation
Model of Granuloma Formation in the Lung During Infection with
Mycobacterium
Tuberculosis................................................................................................ 17
6. The Effect of
Natural Selection on Phylogeny Reconstruction Algorithms............................... 18
7. Structure/Function Analysis of the Bacillus
subtilis Sporulation-Specific Transcription
Factor SpoIIID.................................................................................................................... 19
8. Construction of a Molecular Dynamics Force
Field for an Adenylate Kinase.......................... 20
9. Molecular Dynamic Simulation of Escherichia coli Adenylate Kinase Complexed
10. The Evolution and Consequences of Phenotypic Plasticity: Development of a
11. Integrate Metabolic and Gene Expression Profiles with Partial Least Squares......................... 23
12. Essential Dynamics Analysis on Adenylate Kinases............................................................... 24
13. The Role of Dendritic Cells in the Human Immune Response to Mycobacterium
15. On the Mapping Between mRNA and Protein Expression Profiles in E. coli:
Computational and Mathematical Studies.............................................................................. 27
16. In Silico and In Vitro Studies of a Mutant in Cytochrome c Oxidase Reveal a
18. Mechanistic and Stochastic Modeling of Enzyme Cascades................................................... 30
19. An Agent Based Model of Tuberculosis Granuloma Formation in the Lung............................ 31
20. Molecular Dynamics Studies of Prostaglandin Endoperoxide Synthase-1 in the
Presence of Water and a Native-Like Ligand........................................................................ 32
21. Design and Development of Aminoacyl tRNA Synthetase Inhibitors Using
23. Vascular Networks.............................................................................................................. 35
24. Metabolic Control Analysis under Uncertainty....................................................................... 36
and Product Ligands............................................................................................................ 37