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| A collection of models of biological parts that can be reused and recombined to produce more complex models. A draft implementation of the registry is underway and collaborators are being sought.
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| Talk to us at - BioSysBio 2007, iGEM Jamboree Workshop 2007
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Goals
- To contribute to the Open Source Synthetic Biology effort.
- To store, curate and support models related to physical DNA Biobricks.
- To drive and guide the experimental characterization of BioBricks.
- To enable the reuse of modular part models.
- To provide a forum for modelers to contribute to the BioBricks effort.
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Activities
- Defining Standard Biological Models
- Building a collection of standard biological models.
- Define a modeling description language that is:
- Machine readable (XML, RDF)
- Capable of describing gene expression networks
- Modular (standardized defined inputs/ouputs)
- Hierarchical (models are composable)
- Capable of describing models that can be related to experimental data.
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List of abbreviations:
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- See this page for a draft implementation.
- See this page for a draft on model implementations following CellML 1.1.
- See this page to access current discussion on the implementation.
Interesting stuff to explore ...
- SBML[1] and CellML[2] are already widely used standards. Are they what Synthetic Biology is looking for?
- Petri Nets Markup language is already defining a modular/hierarchical approach. Could be interesting to investigate. [3]
- Standardized outputs: how about using experimental data format to store computed results (like FCS from Flow cytometry), it could help also to define a validation schema when it comes to challenge predicted results with measured ones.
