Processes
Rule
Rule is reaction with generalised components. Components of a rule, also called entities, may refer to more than one entity of a reaction. This link forms a hierarchy of entities. Therefore the reaction can be seen as a special case of the rule. This approach is so-called rule-based modelling.
Attributes of a rule:
- Name - unique identifier of the rule
- Equation - expression of the rule *
- Modifier - set of entities which are mandatory in order to apply the rule
- Classification - short description of general functionality of the rule
- Description - detailed characterization of the rule
- Annotation - links to databases with appropriate annotations *
- Organisms - set of organisms where the rule might occur *
- Notes - additional information
* mandatory (cannot be empty)
Moreover, rule detail provides:
- explicit enumeration of substrates and products,
- classification of the rule in process hierarchy,
- schematical visualisation.
Please use the following reference to cite this web site:
M. Trojak, D. Safranek, J. Hrabec, J. Salagovic, F. Romanovska, J. Cerveny: E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria. In: Computational Methods in Systems Biology, CMSB 2016, Vol. 9859 of LNCS, pp. 316-322. Springer, 2016. DOI
M. Trojak, D. Safranek, J. Hrabec, J. Salagovic, F. Romanovska, J. Cerveny: E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria. In: Computational Methods in Systems Biology, CMSB 2016, Vol. 9859 of LNCS, pp. 316-322. Springer, 2016. DOI