Buch, Englisch, Band 2602, 214 Seiten, Format (B × H): 155 mm x 235 mm, Gewicht: 353 g
First International Workshop, CMSB 2003, Roverto, Italy, February 24-26, 2003
Buch, Englisch, Band 2602, 214 Seiten, Format (B × H): 155 mm x 235 mm, Gewicht: 353 g
Reihe: Lecture Notes in Computer Science
ISBN: 978-3-540-00605-3
Verlag: Springer Berlin Heidelberg
Inresponsetothecallforpapers39weresubmittedtoCMSB2003. Allthe submittedpaperswerereviewedandtheprogrammecommittee(listedbelow) selected11high-qualitypapersforpublicationinthisvolume. Thecareofthe reviewersandoftheprogrammecommitteemembersinreviewingthepapers wassurelyvaluable. Afurther11paperswereselectedonlyforpresentationat theworkshopinordertostimulatediscussions(anabstractisincluded). AttheworkshopEhudShapiroandMichaelSterngavetwoinvited talks whosetopicsaredescribedinpapersincludedinthisvolume. Theprogramme committeedecidedtoacceptforpublicationinthisvolumealsosomeposition papers that highlight the research trends in this new ?eld of computational methodsinsystemsbiology. Thereasonisthatbecausethisisthe?rstedition ofaworkshopinthisfast-growing?eldalargeviewofpotentialtopicsofresearch wasconsideredextremelyimportant. Rovereto,December2002 CorradoPriami ProgrammeCommitteeofCMSB 2003 CorradoPriami(Chair),UniversityofTrento(Italy), CharlesAu?ray,CNRS,Villejuif(France), CosimaBaldari,Universit`adiSiena(Italy), AlexanderBockmayr,Universit´eHenriPoincar´e(France), LucaCardelli,MicrosoftResearchCambridge(UK), VincentDanos,Universit´eParisVII(France), PierpaoloDegano,Universitad ` iPisa(Italy), Francois ¸ Fages,INRIA,Rocquencourt(France), DrabløsFinn,NorwegianUniversityofScienceandTechnology,Trondheim(N- way), MonikaHeiner,BrandenburgUniversityofTechnologyatCottbus(Germany), InaKoch,UniversityofAppliedSciencesBerlin,(Germany), JohnE. Ladbury,UniversityCollegeLondon(UK), PatrickLincoln,SRI(USA), SatoruMiyano,UniversityofTokyo(Japan), GordonPlotkin,UniversityofEdinburgh(UK), SimonPlyte,PharmaciaCorporation(Italy), AvivRegev,WeizmannInstituteofScience(Israel), MagaliRoux-Rouqui´e,BSMIPasteurInstitute(France), VincentSchachter,HybrigenicsParis(France), MasaruTomita,KeioUniversity(Japan), AdelindeUhrmacher,UniversityofRostock(Germany), AlfonsoValencia,CNB-CSIC,CentroNacionaldeBiotecnologia(Spain), OlafWolkenhauer,UMIST,Manchester(UK) Local Organizing Committee Corrado Priami, Linda Brodo, Michela de Concini, Debora Schuch da Rosa Machado,andtheUniversityofTrentoEventsandMeetingsO?ce. List ofReferees F. Abascal,N. Chabrier,A. Cimatti,M. Curti,M. D. Devignes,S. Gnesi, J. Guijarro,K. Hafez,E. Klipp,C. Laneve,P. LopezRomero,F. Luccio, R. Marangoni,M. Padron,M. C. Pinotti,R. Rizzi,S. Tini. Acknowledgement TheworkshopwassponsoredandpartiallysupportedbytheUniversityofTrento, ComunediRovereto,APT,andtheEUprojectIST-32072-DEGAS. Table of Contents IInvitedPapers CellsasComputation. 1 AmitaiRegevandEhudShapiro FormalModelingofC. elegansDevelopment:AScenario-BasedApproach. 4 Na’aman Kam,David Harel,Hillel Kugler, RamiMarelly, AmirPnueli, E. JaneAlbertHubbard, andMichael J. Stern IIRegularPapers Causal?-CalculusforBiochemicalModelling. 21 Michele Curti,Pierpaolo Degano, andCosima Tatiana Baldari GraphsforCoreMolecularBiology. 34 Vincent Danos and Cosimo Laneve ContributionofComputationalTreeLogic toBiologicalRegulatoryNetworks: ExamplefromPseudomonasAeruginosa. 47 SabinePeresandJean-PaulComet ModelingCellularBehaviorwithHybridAutomata: BisimulationandCollapsing. 57 Marco Antoniotti, Bhubaneswar Mishra, Carla Piazza, Alberto Policriti, andMarta Simeoni MultiscaleModelingofAlternativeSplicingRegulation. 75 Damien Eveillard, Delphine Ropers,Hidde deJong,Christiane Branlant, andAlexanderBockmayr AMethodforEstimatingMetabolicFluxes fromIncompleteIsotopomerInformation. 88 JuhoRousu,AriRantanen,HannuMaaheimo, Esa Pitk¨ anen, KatjaSaarela, andEsko Ukkonen DynamicBayesianNetworkandNonparametricRegression forNonlinearModelingofGeneNetworks fromTimeSeriesGeneExpressionData. 104 SunYongKim, SeiyaImoto, andSatoru Miyano VIII Table ofContents DiscreteEventSimulationforaBetterUnderstanding ofMetaboliteChanneling–ASystemTheoreticApproach. 114 Daniela Degenring,Mathias Rohl, ¨ andAdelinde M. Uhrmacher MathematicalModelingoftheIn?uenceofRKIP ontheERKSignalingPathway. 127 Kwang-HyunCho, Sung-YoungShin, Hyun-WooKim,Olaf Wolkenhauer, Brian McFerran,and WalterKolch AMethodtoIdentifyEssentialEnzymesintheMetabolism: ApplicationtoEscherichia Coli.
Zielgruppe
Research
Autoren/Hrsg.
Fachgebiete
- Naturwissenschaften Biowissenschaften Biowissenschaften Evolutionsbiologie
- Mathematik | Informatik EDV | Informatik Informatik Logik, formale Sprachen, Automaten
- Mathematik | Informatik EDV | Informatik Programmierung | Softwareentwicklung Grafikprogrammierung
- Naturwissenschaften Biowissenschaften Angewandte Biologie Bioinformatik
- Mathematik | Informatik EDV | Informatik Angewandte Informatik Bioinformatik
Weitere Infos & Material
Invited Papers.- Cells as Computation.- Formal Modeling of C. elegans Development: A Scenario-Based Approach.- Regular Papers.- Causal ?-Calculus for Biochemical Modelling.- Graphs for Core Molecular Biology.- Contribution of Computational Tree Logic to Biological Regulatory Networks: Example from Pseudomonas Aeruginosa.- Modeling Cellular Behavior with Hybrid Automata: Bisimulation and Collapsing.- Multiscale Modeling of Alternative Splicing Regulation.- A Method for Estimating Metabolic Fluxes from Incomplete Isotopomer Information.- Dynamic Bayesian Network and Nonparametric Regression for Nonlinear Modeling of Gene Networks from Time Series Gene Expression Data.- Discrete Event Simulation for a Better Understanding of Metabolite Channeling - A System Theoretic Approach.- Mathematical Modeling of the Influence of RKIP on the ERK Signaling Pathway.- A Method to Identify Essential Enzymes in the Metabolism: Application to Escherichia Coli.- Symbolic Model Checking of Biochemical Networks.- Presentation Abstracts.- Coupled Oscillator Models for a Set of Communicating Cells.- Representing and Simulating Protein Functional Domains in Signal Transduction Using Maude.- A Core Modeling Language for the Working Molecular Biologist (Abstract).- Integrating Simulation Packages via Systems Biology Mark-Up Language.- Recreating Biopathway Databases towards Simulation.- How to Synthesize an Optimized Genetic ?-Switching System? A System-Theoretic Approach Based on SQP.- Simulation Sudy of the TNF? Mediated NF-?B Signaling Pathway.- Detection and Analysis of Unexpected State Components in Biological Systems.- Model Validation of Biological Pathways Using Petri Nets - Demonstrated for Apoptosis.- An Overview of Data Models for the Analysis of Biochemical Pathways.- DiscreteEvent Systems and Client-Server Model for Signaling Mechanisms.- Position Papers.- Enhanced Operational Semantics in Systems Biology.- Issues in Computational Methods for Functional Genomics and Systems Biology.- Integrating Biological Process Modelling with Gene Expression Data and Ontologies for Functional Genomics (Position Paper).- Computer Simulation of Protocells.- How to Solve Semantic Puzzles of Systems Biology.- Evolution as Design Engineer.- Inference, Modeling and Simulation of Gene Networks.
