Advances in Systems Biology

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Lee K. Opresko, Julie M. Gephart, Michaela B. Mann
Springer Science & Business Media, 19.05.2004 - 108 Seiten
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AbouttheNorthwestSymposiumforSystemsBiology This publication is the proceedingsofthe Pacific Northwest National Laboratory (PNNL) inaugural meeting of the Northwest Symposium for Systems Biology, held October 17 and 18,2002, in Richland, Washington. This is the40thyear in which the laboratory has held an interdisciplinary science symposium to address important biologicalquestions. Inyearspast, theunifyingthemewasenvironmentalsciences.This yearwebegananewseriesofsymposiaonsystemsbiology.Aparticularfocusofthese symposiawill beon identifyingcurrentbreakthroughtechnologiesand theirapplication toimportantmodelsystems. PNNLestablished theBiomolecularSystemsInitiative(BSI) toexploit the unique andinnovativetechnologiesdevelopedhereatthelaboratory, especiallyattheWilliamR. Wiley Environmental Molecular Sciences Laboratory (EMSL). The BSI is a multidisciplinary research program thatfocuses on theareasofresearch that will drive biology in the post-genomic era. It combines cutting-edge capabilities for high throughputproteomics, cellimaging, quantitativebiology, andcomputationalbiology. To understand complex biological systems, scientists must acquire detailed knowledgeaboutcellsignaling, andabouthownetworksregulatecellfunctions.Thiswill requireanintegratedeffortacrossavarietyofresearchdisciplines: molecularandcellular biology, biochemistry, physics, mathematics, and information science. The BSI is working to provide opportunities for scientists from different disciplines to gatherand discusscell networksatallscalesaswell asapproachesforunderstandingthemolecular componentsofthesenetworks. The theme of this year's symposium was the U.S. Department ofEnergy's new Genomes to Life (GTL) program. GTL has the eventual goal of a fundamental, comprehensive, andsystematicunderstandingoflife. In its initial implementation, GTL focusesonpost-genomicapproachestounderstanding ComplexMicrobialSystems ComputationalMethods MolecularMachines: Multiproteincomplexes GeneRegulatoryNetworks.
 

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Inhalt

INTRODUCTION About the Northwest Symposium for Systems Biology
1
HIGHTHROUGHPUT TECHNIQUES FOR ANALYZING COMPLEX BACTERIAL COMMUNITIES
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21 THE TALK
6
A HOLISTIC APPROACH
7
23 TECHNOLOGY DEVELOPMENTSDNA MICROARRAY TECHNOLOGY
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24 ACKNOWLEDGMENTS
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A SYSTEMS APPROACH TO DISCOVERING SIGNALING AND REGULATORY PATHWAYS or how to digest large interaction networks into rel...
21
32 INTEGRATING INTERACTIONS AND MOLECULAR STATES
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52 THE 20S PROTEASOME
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53 THE 26S PROTEASOME
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54 PROTEASOME ACTIVATORS
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55 REGS
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57 ecm29 OR golgiPA
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CONFORMATIONAL SWITCHING IN MUSCLE
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62 SPECTROSCOPIC TECHNIQUES IN MUSCLE CONTRACTION
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64 ORIENTATION AND DYNAMICS OF THE MYOSIN HEAD
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33 AUTOMATICALLY EXTRACTING INTERACTION PATHWAYS FROM THE NETWORK
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34 SCREENING FOR ACTIVE PATHWAYS RESPONDING TO GALACTOSE GENE PERTURBATIONS
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35 PATHWAYS RESPONDING TO DNA DAMAGE AS REVEALED BY HIGH THROUGHPUT PHENOTYPIC ASSAYS
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37 ACKNOWLEDGMENTS
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GENOME FUNCTIONA VIRUSWORLD VIEW
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42 THE T7 DEVELOPMENT PROCESS
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43 FROM EQUATIONS TO INTEGRATED DYNAMICS
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44 INFERENCE TOOLS
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45 NATURE VERSUS NURTURE
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46 ACKNOWLEDGMENTS
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INTRACELLULAR PROTEOLYSIS AND PROTEASOMES
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65 ACKNOWLEDGMENTS
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THE INTRICATE WORKINGS OF A BACTERIAL EPIGENETIC SWITCH
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721 Data Supporting the Core Switch Model
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ENVIRONMENTAL EFFECTS ON PAP PHASE VARIATION
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74 ACKNOWLEDGMENTS
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YEAST SIGNAL TRANSDUCTION REGULATION AND INTERFACE WITH CELL BIOLOGY
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83 STE20 INTERFACE WITH CELL BIOLOGY
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84 SUMMARY
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85 ACKNOWLEDGMENTS
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INDEX
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