Formal Methods in Systems Biology: First International Workshop, FMSB 2008, Cambridge, UK, June 4-5, 2008, Proceedings

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Jasmin Fisher
Springer Science & Business Media, 26.05.2008 - 139 Seiten
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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.
 

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Inhalt

Realistic Modeling of Complex Natural Systems
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
Author Index
139
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