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ICSB 2007 Welcome to the Eighth International Conference on Systems Biology
Long Beach, California October 1-6, 2007
Abstract Submission Tutorials WorkshopsCommitteesPosters    Posters By Topic:
A. RTK Systems Biology
B. Morphogenesis
C. Synthetic Biology
D. Mathematical Frontiers
E. Technological Froniters
F. Regulatory Systems
G. Systems Bioinformatics: Tools
H. Systems Bioinformatics: Analysis
I. Systems Biomedicine
J. Multiscale Networks
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   Submission Call (archive)
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J. Multiscale Networks


J01. Uncovering complex essential reaction sets in E. coli metabolism through pathway fragment analysis
Marcin Imielinski (MD/PhD Program, University of Pennsylvania School of Medicine)

J02. Integrated, Dynamic Flux Balance Analysis of a Representative Module in Saccharomyces cerevisiae
Erwin P. Gianchandani (Department of Biomedical Engineering, University of Virginia, Charlottesville)

J03. Selecting among the multiple alternate optimal solutions of the Flux Balance Analysis of yeast metabolism: Use of the adaptational potential of the organism
Ettore Murabito (Doctoral Training Centre in Systems Biology, Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, Manchester, United Kingdom; School of Chemical Engineering and Analytical Science, The University of Manchester, Manchester, United Kingdom)

J04. The Edinburgh human metabolic network reconstruction
I Goryanin (School of Informatics, university of Edinburgh)

J05. Towards modeling and simulation of Glycolysis and TCA cycle
Hirotada Mori (Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0101 Japan)

J06. Changes in fermentative capacity during nitrogen starvation in baker’s yeast are initially regulated by multi-site modulation
Karen van Eunen (Department of Molecular Cell Physiology, Vrije Universiteit Amsterdam, NL)

J07. Plant-Scale Kinetic and Structural Modeling of Sucrose Accumulation in Sugarcane
Johann M. Rohwer (Dept. of Biochemistry, Stellenbosch University, South Africa)

J08. System-level analysis of metabolism in Yersinia pseudotuberculosis and the biovars of Yersinia pestis using a genome-scale mathematical model
Ali Navid (Chemistry, Materials and Life Sciences Directorate, Lawrence Livermore National Laboratory)

J09. Dynamic modeling of central metabolism and regulatory network of Escherichia coli for amino acid production simulation
Yoshihiro Usuda (Life Science Institute, Ajinomoto Co., Inc.)

J10. Intra- and inter-cellular network analyses for characterizing pathogen-host interactions
Arvind K. Chavali (Department of Biomedical Engineering, University of Virginia)

J11. Race to Domination: A community competition study of Escherichia coli, Geobacter sulfurreducens, and Rhodoferax ferrireducens
Kai Zhuang (Department of Chemical Engineering, University of Toronto)

J12. The evolution of the bifurcation phenotype: Phylogenetic and dynamical analysis of fungal GATA networks
Rainer Machne (Institute for Theoretical Chemistry, University of Vienna, Austria)

J13. Evolution of the Structure of Metabolic Networks
Momiao Xiong (Human Genetics Center, University of Texas School of Public Health )

J14. In Silico Evolution of Reaction Networks
Herbert M. Sauro (University of Washington, Seattle)

J15. Bridging the Gap between Constraint-based and Kinetic Modelling
Evangelos Simeonidis (Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, 131 Princess Street, M1 7DN, Manchester, UK; School of Chemical Engineering and Analytical Science, The University of Manchester, PO Box 88, Sackville Street, M60 1QD, Manchester, UK)

J16. The effect of negative feedback loops on the dynamics of Boolean networks
Reinhard Laubenbacher (Virginia Bioinformatics Institute/Department of Mathematics, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061)

J17. Dynamic Motifs of Cellular Networks: Coupled Feedback Loops
Jeong-Rae Kim (Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, Korea)

J18. Structural and Functional Characterization of Combined Regulatory Network Motifs
C.-M. Ghim (Biosciences and Biotechnology Division, Lawrence Livermore National Laboratory)

J19. Building Networks From the Ground Up: Robustness and Predictability of Regulatory Modules
Sarah R. Stockwell (Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, USA)

J20. Multi-omics data reveals the response of Escherichia coli to perturbations
Nobuyoshi Ishii (Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan)

J21. Reconstruction of Biological Networks through Gene Silencing and Overexpression
Russell Howes (IDeA Labs, Computer Science Department, Brigham Young University)

J22. Pathway reconstruction via analysis of constitutive fluctuations in molecular activities
Hunter L Elliott (Department of Cell Biology, Scripps Research Institute, La Jolla)

J23. A Biochemical Reaction Network with Multiple Functionalities
Marvin N. Steijaert (Department of Biomedical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands)

J24. Network reachability does not guarantee dynamic perturbation due to multiple positive feedbacks
Yunchen Gong (Banting & Best Department of Medical Research, University of Toronto)

J25. Global robustness and identifiability of random, scale-free and small-world networks
Yunchen Gong (Banting & Best Department of Medical Research (BBDMR), Donnelly Center for Cellular & Biomolecular Research (CCBR), University of Toronto)

J26. Objective criteria for defining hubs in protein interaction networks
Ravishankar R. Vallabhajosyula (Keck Graduate Institute of Applied Life Sciences)

J27. Fitting a Geometric Graph to a Protein-Protein Interaction Network
Marija Rasajski (Department of Computer Science, University of California, Irvine)

J28. A Protocol for the Identification of Membrane Protein Interaction Networks
Brian S. Hooker (Pacific Northwest National Laboratory)

J29. Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map
Sean R. Collins (Department of Cellular and Molecular Pharmacology and The California Institute for Quantitative Biomedical Research, San Francisco, U.S.A.)

J30. Discovery of Phenotype Related Modules by Incorporating Expression Data to Protein Interaction Networks
Shouguo Gao (Max McGee National Research Center for Juvenile Diabetes & Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee)

J31. Topological Importance of Transcriptional Regulatory Network Revealed by Genetic Perturbation in Yeast
Zhihua Zhang (Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor)

J32. Geometry, Functionality and Robustness: Exploring the Parameter Space of the Segment Polarity Network
Adel Dayarian (Department of Physics and BioMaPS Institute for Quantitative Biology, Rutgers University, Piscataway, NJ)

J33. Mathematical Modeling of the Transcriptional Network Controlling the Environmental Stress Response in Saccharomyces cerevisiae
Kam D. Dahlquist (Department of Biology, Loyola Marymount University)

J34. Dynamic response of Saccharomyces cerevisiae to transient perturbations in ammonia concentration and integration of metabolome and transcriptome data
Duygu Dikicioglu (Department of Chemical Engineering, Bogazici University, Istanbul, Turkey)

J35. Modeling the dynamic behavior of an oleate-responsive gene regulatory network in Saccharomyces cerevisiae
Alexander V. Ratushny (Institute for Systems Biology, Seattle, WA)

J36. Gene regulation of metabolic pathways: A continuous model for Escherichia coli carbon sources uptake
Pablo Moreno (Bioinformatics and Mathematics of Genome Laboratory, Centre for Mathematical Modeling, University of Chile, Chile)

J37. Temporal gene expression analysis of hypoxia in human muscle cell
Masaki S. Morioka (Dept. of Computational Biology, School of Biomedical Science, Tokyo Medical and Dental University, Tokyo, Japan)

J38. Systems approach divulges redox regulation of Arabidopsis transcriptome
Abha Khandelwal (Dept. of Biology, Washington University in St. Louis)

J39. A Computational Model of Male Fathead Minnow Reproductive System Regulation: Linking changes in gene expression with reproductive effects
Karen H. Watanabe (Department of Environmental & Biomolecular Systems, Oregon Health & Science University)

J40. Revealing a heart-specific gene network by a new algorithm of spectral graph clustering using a compendium of microarray expression data
Seong-Eui Hong (Department of Life Science, Gwangju Institute of Science and Technology (GIST) Gwangju, Korea)

J41. Identification and Modeling of Co-Rhythmic Genes from Micro-array Time Series Data
Wenxue Wang (Department of Mathematics and Statistics, Texas Tech University)

J42. Comparing protein and mRNA expression level on a genome scale: posttranscriptional regulation in yeast Saccharomyces cerevisiae
Roberto Olivares (Center for Microbial Biotechnology, BioCentrum-DTU, Building 223, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark. )

J44. Complex Systems Biology of Prostate Cancer
Michael C. Weis (Department of Electrical Engineering and Computer Science, Case Western Reserve University)

J45. Network Topology and Pattern Storage: Applications to Hippocampal CA3 Synaptic Connectivity
Gabriele Scheler (Department of Computer Science, Stanford University)

J46. Visual framework for bio-medical knowledge organization
Anatoly Sorokin (Computational Systems Biology Group, The University of Edinburgh, Edinburgh)

J47. The Competence Network HepatoSys
Ute Heisner (HepatoSys, Institute for Physics, University of Freiburg)

J50. Cooperation in yeast sucrose metabolism
Jeff Gore (Dept. of Physics, Massachusetts Institute of Technology, MA, USA)


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