Formal Methods in Systems Biology: First International Workshop, FMSB 2008, Cambridge, UK, June 4-5, 2008, ProceedingsJasmin Fisher Springer, 05.06.2008 - 139 Seiten Thisvolumecontainstheproceedingsofthe?rstinternationalmeetingonFormal Methods in Systems Biology, held at Microsoft Research, Cambridge, UK, June 4–5, 2008. While there are several venues that cover computational methods in systems biology,there is to date no single conference that brings together the application of the range of formal methods in biology. Therefore, convening such a meeting could prove extremely productive. The purpose of this meeting was to identify techniques for the speci?cation, development and veri?cation of biological m- els.Italsofocusedonthedesignoftoolstoexecuteandanalyzebiologicalmodels in ways that can signi?cantly advance our understanding of biological systems. As a forum for this discussion we invited key scientists in the area of formal methods to this unique meeting. Although this was a one-o? meeting, we are exploring the possibility of this forming the ?rst of what might become an annual conference. Presentations at the meeting were by invitation only; future meetings are expected to operate on a submission and review basis. The Steering Committee and additional referees reviewed the invited papers. Each submission was evaluated by at least two referees. The volume includes nine invited contributions. Formal Methods in Systems Biology 2008 was made possible by the cont- bution and dedication ofmany people. First of all,we wouldlike to thank allthe authors who submitted papers. Secondly, we would like to thank our additional invited speakers and participants. We would also like to thank the members of the Steering Committee for their valuable comments. Finally, we ackno- edge the help of the administrative and technical sta? at the MicrosoftResearch Cambridge lab. |
Inhalt
1 | |
Concurrency for Modeling CellCell Interactions | 17 |
Computational Probability for Systems Biology | 33 |
Design Issues for Qualitative Modelling of Biological Cells with Petri Nets | 48 |
Combining Intra and Intercellular Dynamics to Investigate Intestinal Homeostasis | 63 |
Approximating Continuous Systems by Timed Automata | 77 |
A Theorem | 90 |
RuleBased Modelling Symmetries Refinements | 103 |
One Modelling Formalism Simulator Is Not Enough A Perspective for Computational Biology Based on JAMES II | 123 |
139 | |
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Formal Methods in Systems Biology: First International Workshop, FMSB 2008 ... Jasmin Fisher Eingeschränkte Leseprobe - 2008 |
Formal Methods in Systems Biology: First International Workshop, FMSB 2008 ... Jasmin Fisher Keine Leseprobe verfügbar - 2009 |
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abstraction action activates ambient analysis animated front-end applied approach automata automaton behavior BETA BINDERS biochemical biological models biological systems bounded asynchrony cascade cell fate cellular channel chemical reactions clock complex components concurrent crypt CTMC cube defined denoted describe DEVS differential influence graph discrete dynamical systems elegans vulval development equations example execution gene gene regulatory networks Harel Heidelberg Hybrid implementation inhibits initial interactions interleaving JAMES II kinetic expressions Kronecker Kronecker product LNBI LNCS macro-step Markov chains matrix mechanism methods Microsoft Research model checking modelling and simulation modelling formalisms molecular molecules networks pathway Petri nets plugins protein reachable reaction model reaction rules reactive animation scenario-based semantics simulation algorithms space Springer statecharts stem cells stochastic simulation structure sub-volumes syntactical influence graph Systems Biology techniques theorem tion tool trajectory transition transition relation variable Wnt signalling Wnt signalling pathway