Formal Methods for Computational Systems Biology: 8th International School on Formal Methods for the Design of Computer, Communication, and Software Systems, SFM 2008 Bertinoro, Italy, June 2-7, 2008Marco Bernardo, Pierpaolo Degano, Gianluigi Zavattaro Springer Science & Business Media, 20.05.2008 - 527 Seiten This volume presents the set of papers accompanying the lectures of the eighth International School on Formal Methods for the Design of Computer, Com- nication, and Software Systems (SFM). Thisseriesofschoolsaddressestheuseofformalmethodsincomputerscience asaprominentapproachtotherigorousdesignofcomputer, communication, and software systems. The main aim of the SFM series is to o'er a good spectrum of current research in foundations as well as applications of formal methods, which can be of help for graduate students and young researchers who intend to approach the ?eld. SFM 2008 was devoted to formal techniques for computational systems - ology and covered several aspects of the ?eld, including computational models, calculi and logics for biological systems, and veri'cation and simulation me- ods. Theschoolfeatured not onlyregularlectures, but also talksgivenby people involvedinthe ItalianresearchprojectonBio-InspiredSystems andCalculiwith Applications (BISCA). The ?rst partof this volume comprises nine papers basedon regularlectures. The paper by Degasperi and Gilmore describes the application of sensitivity analysistechniques to stochastic simulation algorithms. Talcott's paper presents pathway logic, an approach to modeling and analysis of biological processes based on rewriting logic. Fages and Soliman study reaction graphs and acti- tion/inhibition graphs used by biologists through formal methods originating from programming theory. The paper by Maus, John, R] ohl, and Uhrmacher d- cusses categories, abstraction hierarchies, and composition hierarchies playing a role in modeling and simulation for computational biology. Gillespie's paper - views the theory of stochastic chemical kinetics and several simulation methods that are based on that theory. |
Inhalt
Sensitivity Analysis of Stochastic Models of Bistable Biochemical Reactions | 1 |
Pathway Logic | 21 |
Formal Cell Biology in Biocham | 54 |
Hierarchical Modeling for Computational Biology | 81 |
Simulation Methods in Systems Biology | 125 |
Membrane Computing as a Modeling Framework Cellular Systems Case Studies | 168 |
Petri Nets for Systems and Synthetic Biology | 215 |
Process Algebras in Systems Biology | 265 |
A Tutorial | 313 |
A Holistic Approach | 366 |
The Calculus of Looping Sequences | 387 |
Hybrid Systems and Biology Continuous and Discrete Modeling for Systems Biology | 424 |
A πBased Process Calculus for the Implementation of Compartmentalised Bioinspired Calculi | 449 |
A Gentle Introduction to Stochastic PolyAutomata Collectives and the BioChemical Ground Form | 507 |
524 | |
Andere Ausgaben - Alle anzeigen
Formal Methods for Computational Systems Biology: 8th International School ... Marco Bernardo,Pierpaolo Degano,Gianluigi Zavattaro Eingeschränkte Leseprobe - 2008 |
Formal Methods for Computational Systems Biology: 8th International School ... Marco Bernardo,Pierpaolo Degano,Gianluigi Zavattaro Keine Leseprobe verfügbar - 2009 |
Formal Methods for Computational Systems Biology: 8th International School ... Marco Bernardo,Pierpaolo Degano,Gianluigi Zavattaro Keine Leseprobe verfügbar - 2008 |
Häufige Begriffe und Wortgruppen
abstract action activation algorithm ambient analysis application approach associated behaviour BETA-BINDERS binder binding BioAmbients biological systems BlenX bproc Brane calculus cell cellular channel chemical chemical kinetics compartment complex components Computer Science concentration corresponding CTMC cyclin defined definition denoted described deterministic discrete dynamics EgfR encoding enzyme equation ERKPP example formal gene Gillespie glucose Heidelberg hybrid automata influence graph initial input interaction interface kinase label lac operon LNCS MAPK MEKPP Membrane Computing model checking molecular molecules mRNA multiset nodes number of molecules operator output P₁ parameters Petri net Petri nets pi-calculus ports Priami process algebras process calculi propensity functions properties protein quorum sensing RafP reachability reactants reaction represent rewrite rules rotaxane SBML semantics sequence signal Sos1 species Springer ssSSA stochastic simulation structure syntax systems biology T-invariant tau-leaping temporal logic term transcription transition values variables