Biological Networks Symposium and Retreat
Table of Contents
Talks - Friday, October 17
| Morning Session | Page |
| Building a Quantitative Model of Metabolic Fluxes During Oilseed Metabolism by John Ohlrogge/Joerg Schwender, Department of Plant Biology, MSU | 1 |
| Discovery of Novel Metabolic Networks by Vassily Hatzimanikatis, Department of Chemical Engineering, Northwestern University | 2 |
| Systems Biology of the Drosophila Blastodermby John Reinitz, Department of Applied Math and Statistics, SUNY at Stony Brook | 3 |
| Dynamics of the Imune Response to Infection with M. Tuberculosis by Denise Kirschner, Department of Microbiology and Immunology, University of Michigan | 4 |
| Afternoon Session | |
| The Structure of Social and Biological Networks by Mark Newman, Department of Physics, University of Michigan | 5 |
| Neural Networks, Brain Rhythms and Computational Neuropharmacology by Péter Érdi , Center for Complex System Studies, Kalamazoo College | 6 |
| Gene Regulatory Networks in Bacteria by Lee Kroos, Department of Biochemistry and Molecular Biology, MSU | 7 |
| Incorporation of Computational Approaches into Mechanistic and Predictive Toxicology by Tim Zacharewski, Department of Biochemistry & Molecular Biology, MSU | 8 |
Annual Retreat, Saturday, October 18 Morning Session |
|
| Geometry and Physics of Proteins by Jayanth Banavar, Department of Physics, Pennsylvania State University | 9 |
| Recent Research at the Interface of Computational Chemistry and Computational Biology by Ronald Levy, Department of Chemistry/Chemical Biology, Rutgers University | 10 |
| Predicting Protein-Protein Interactions from Sequence Data by Chris Adami, Digital Life Laboratory, California Institute of Technology | 11 |
| An Integrated Approach for Protein Function Prediction by Fengzhu Sun, Department of Biological Sciences, University of Southern California | 12 |
Posters
| 1. | Dynamics of CD8+ T Cells in HIV-1 Disease Progression by Bajaria, Seema | 13 |
| 2. | Simulated Evolution of Consensus Bacterial promoters from Trinucleotide Polymers by Buyukbozkirli, Bulent | 14 |
| 3. | Temporal Specificity of Mechanisms Used by Mycobacterium tuberculosis to Inhibit Antigen Presentation by Chang, Stewart | 15 |
| 4. | Comparisons of Codon Usage Reveal Microbial Life History Adaptations by Dethlefsen, Les | 16 |
| 5. | A Metapopulation Model of Granuloma Formation in the Lung During Infection with Mycobacterium Tuberculosise by Ganguli, Suman | 17 |
| 6. | The Effect of Natural Selection on Phylogeny Reconstruction Algorithms by Hang, Dehua | 18 |
| 7. | Structure/Function Analysis of the Bacillus subtilis Sporulation-Specific Transcription Factor SpoIIIDby Himes, Paul | 19 |
| 8. | Construction of a Molecular Dynamics Force Field for an Adenylate Kinase by Kimple, Adam | 20 |
| 9. | Molecular Dynamic Simulation of Escherichia coli Adenylate Kinase Complexed with its Substrates MgATP and AMP by Krishnamurthy, Harini | 21 |
| 10. | The Evolution and Consequences of Phenotypic Plasticity: Development of a Computational System to Study Ecological Communities by Lanfear, Robert | 22 |
| 11. | Integrate Metabolic and Gene Expression Profiles with Partial Least Squares by Li, Zheng | 23 |
| 12. | Essential Dynamics Analysis on Adenylate Kinases by Lou, Hongfeng | 24 |
| 13. | The Role of Dendritic Cells in the Human Immune Response to Mycobacterium tuberculosis in Lung and Lymph Node by Marino, Simeone | 25 |
| 14. | Discovering General Properties of Cis Regulatory Elements by Martinez, Carlos | 26 |
| 15. | On the Mapping Between mRNA and Protein Expression Profiles in E. coli: Computational and Matematical Studiesby Mehra, Amit | 27 |
| 16. | In Silico and In Vitro Studies of a Mutant in Cytochrome c Oxidase Reveal a Mechanism for Proton Movement Above the Hemes by Mills, Denise | 28 |
| 17. | Synergistic Effect of Multiple Risk Alleles on Attention Deficit Hyperactivity Disorder by Park, Leeyoung | 29 |
| 18. | Mechanistic and Stochastic Modeling of Enzyme Cascades by Rieger, Theodore | 30 |
| 19. | An Agent Based Model of Tuberculosis Granuloma Formation in the Lung by Segovia-Juarez, Jose | 31 |
| 20. | Molecular Dynamics Studies of Prostaglandin Endoperoxide Synthase-1 in the Presence of Water and a Native-Like Ligand by Seibold, Steve | 32 |
| 21. | Design and Development of Aminoacyl tRNA Synthetase Inhibitors Using Structure-Based Screening by Sukuru, Chetan | 33 |
| 22. | Data Grouping by Clustering Ensemblesn by Topchy, Alexander | 34 |
| 23. | Vascular Networks by Wang, Chang | 35 |
| 24. | Metabolic Control Analysis under Uncertainty by Wang, Liqing | 36 |
| 25. | Molecular Dynamics Simulations of DHNA Complexed with its Reactant and Product Ligands by Yao, Lishan | 37 |