Architectural mismatch or why it's hard to build systems out of existing parts
Proceedings of the 17th international conference on Software engineering
Model composability: formulating a research thrust: composable simulations
Proceedings of the 32nd conference on Winter simulation
The JigCell Model Builder: A Spreadsheet Interface for Creating Biochemical Reaction Network Models
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
The potential coupling interface: metadata for model coupling
WSC '04 Proceedings of the 36th conference on Winter simulation
Foundations of validating reusable behavioral models in engineering design problems
WSC '04 Proceedings of the 36th conference on Winter simulation
A case study of model context for simulation composability and reusability
WSC '05 Proceedings of the 37th conference on Winter simulation
The role of composition and aggregation in modeling macromolecular regulatory networks
Proceedings of the 38th conference on Winter simulation
Fusing and composing macromolecular regulatory network models
SpringSim '07 Proceedings of the 2007 spring simulation multiconference - Volume 2
A benchmark diagnostic model generation system
IEEE Transactions on Systems, Man, and Cybernetics, Part A: Systems and Humans - Special issue on model-based diagnostics
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Models of regulatory networks become more difficult to construct and understand as they grow in size and complexity. Large models are usually built up from smaller models, representing subsets of reactions within the larger network. To assist modelers in this composition process, we present a formal approach for model composition, a wizard-style program for implementing the approach, and suggested language extensions to the Systems Biology Markup Language to support model composition. To illustrate the features of our approach and how to use the JigCell Composition Wizard, we build up a model of the eukaryotic cell cycle "engine” from smaller pieces.