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Team:UANL Mty-Mexico/Modeling
From 2013.igem.org
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<p>Aside from the common objection that they are not suitable to describe systems that show a low number of particles, we believe that a deterministc model at a molecular level of these kind of systems and the degree of certainty with which they can be used for inter-system comparison or usage, do not outweigh the costs of the experimental determination of parameters.</p> | <p>Aside from the common objection that they are not suitable to describe systems that show a low number of particles, we believe that a deterministc model at a molecular level of these kind of systems and the degree of certainty with which they can be used for inter-system comparison or usage, do not outweigh the costs of the experimental determination of parameters.</p> | ||
| - | <p>Here we propose a model for the description and comparison of the behavior of the effect of RNA thermometers or RNATs on the expression of a reporter protein. The model is tested with relative fluorescence units data, which are not hard to obtain, and the model and its parameters should allow for inter-system comparisons, i.e., to compare the temperature-dependent gene regulation features of different RNATs; an extension | + | <p>Here we propose a model for the description and comparison of the behavior of the effect of RNA thermometers or RNATs on the expression of a reporter protein. The model is tested with relative fluorescence units data, which are not hard to obtain, and the model and its parameters should allow for inter-system comparisons, i.e., to compare the temperature-dependent gene regulation features of different RNATs; an extension that works with protein concentration units is also proposed, along with a potential application in metabolic engineering, and waits for experimental validation.</p></div> |
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Revision as of 00:19, 8 September 2013
Mathematical models that represent the dynamic behavior of biological systems are a quite prolific field of work and are pillar for Systems Biology. A number of deterministic and stochastic formalisms have been developed at different abstraction levels that range from the molecular to the population levels.
In principle, a model that is simple but that is good enough to describe and make predictions, with a degree of certainty, about the phenomenon under scrutiny, would be desirable.
Deterministic mathematical models that describe the behavior of genetic circuits and the interactions of the proteins they encode are usually built upon mass action kinetics theory.
Aside from the common objection that they are not suitable to describe systems that show a low number of particles, we believe that a deterministc model at a molecular level of these kind of systems and the degree of certainty with which they can be used for inter-system comparison or usage, do not outweigh the costs of the experimental determination of parameters.
Here we propose a model for the description and comparison of the behavior of the effect of RNA thermometers or RNATs on the expression of a reporter protein. The model is tested with relative fluorescence units data, which are not hard to obtain, and the model and its parameters should allow for inter-system comparisons, i.e., to compare the temperature-dependent gene regulation features of different RNATs; an extension that works with protein concentration units is also proposed, along with a potential application in metabolic engineering, and waits for experimental validation.
