Introduction to Algorithms
An Information-Theoretic Definition of Similarity
ICML '98 Proceedings of the Fifteenth International Conference on Machine Learning
Web-based kinetic modelling using JWS Online
Bioinformatics
Ontologies for modeling and simulation: issues and approaches
WSC '04 Proceedings of the 36th conference on Winter simulation
Simulation and the semantic web
WSC '05 Proceedings of the 37th conference on Winter simulation
Bioinformatics
SED-ML --- An XML Format for the Implementation of the MIASE Guidelines
CMSB '08 Proceedings of the 6th International Conference on Computational Methods in Systems Biology
Efficient, correct simulation of biological processes in the stochastic pi-calculus
CMSB'07 Proceedings of the 2007 international conference on Computational methods in systems biology
Towards reusing model components in systems biology
CMSB'04 Proceedings of the 20 international conference on Computational Methods in Systems Biology
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Modelling and simulation methods gain increasing importance for the understanding of biological systems. The growing number of available computational models makes support in maintenance and retrieval of those models essential to the community. This article discusses which model information are helpful for efficient retrieval and how existing similarity measures and ranking techniques can be used to enhance the retrieval process, i. e. the model reuse. With the development of new tools and modelling formalisms, there also is an increasing demand for performing search independent of the models' encoding. Therefore, the presented approach is not restricted to certain model storage formats. Instead, the model meta-information is used for retrieval and ranking of the search result. Meta-information include general information about the model, its encoded species and reactions, but also information about the model behaviour and related simulation experiment descriptions.