Difference between revisions of "Dehydrogenase"
(→Parameters with uncertainty) |
|||
Line 29: | Line 29: | ||
==Parameters with uncertainty== | ==Parameters with uncertainty== | ||
− | * This is a pseudo-reaction, modelled using mass action kinetics (i.e., as non-saturable, non-enzymatic reactions) to maintain maximal compatibility with Pyridine Nucleotides balances. The parameter values were adjusted through model simulations and the values chosen were those that best predicted NAD+ concentration (determined experimentally) in Hernandez ''et. al.'' <ref name="Hernandez2011"></ref>. No information is available about the uncertainty of these parameters. As these parameters are strictly positive, they are sampled using a log-normal distribution as are and values. The means are set to the value using fitted by Hernandez et al. <ref name="Hernandez2011"></ref> for the fixed-parameter model. The sampling of the parameters are made to fall within <math>[0. | + | * This is a pseudo-reaction, modelled using mass action kinetics (i.e., as non-saturable, non-enzymatic reactions) to maintain maximal compatibility with Pyridine Nucleotides balances. The parameter values were adjusted through model simulations and the values chosen were those that best predicted NAD+ concentration (determined experimentally) in Hernandez ''et. al.'' <ref name="Hernandez2011"></ref>. No information is available about the uncertainty of these parameters. As these parameters are strictly positive, they are sampled using a log-normal distribution as are and values. The means are set to the value using fitted by Hernandez et al. <ref name="Hernandez2011"></ref> for the fixed-parameter model. The sampling of the parameters are made to fall within <math>[0.001\times mean \quad 1000 \times mean ]</math> to allow a large exploration of the parameter space. |
Line 39: | Line 39: | ||
|- | |- | ||
|<math>K_{1}</math> | |<math>K_{1}</math> | ||
− | | | + | |Sampled between 0.25 and 250000 |
|rowspan="2"|HeLa cell line | |rowspan="2"|HeLa cell line | ||
|rowspan="2"| | |rowspan="2"| | ||
|- | |- | ||
|<math>K_{2}</math> | |<math>K_{2}</math> | ||
− | | | + | |Sampled between 0.001 and 1000 |
|} | |} | ||
==References== | ==References== | ||
<references/> | <references/> |
Revision as of 11:07, 15 May 2014
A dehydrogenase is an enzyme that oxidizes a substrate by a reduction reaction that transfers one or more hydrides (H−) to an electron acceptor, usually Nicotinamide adenine dinucleotide NAD+/NADP.
Contents
Chemical reaction
Rate equation
Reversible mass action rate law is used
Parameters
Parameter | Value | Organism | Remarks |
---|---|---|---|
250 [1] | HeLa cell line | ||
1[1] |
Parameters with uncertainty
- This is a pseudo-reaction, modelled using mass action kinetics (i.e., as non-saturable, non-enzymatic reactions) to maintain maximal compatibility with Pyridine Nucleotides balances. The parameter values were adjusted through model simulations and the values chosen were those that best predicted NAD+ concentration (determined experimentally) in Hernandez et. al. [1]. No information is available about the uncertainty of these parameters. As these parameters are strictly positive, they are sampled using a log-normal distribution as are and values. The means are set to the value using fitted by Hernandez et al. [1] for the fixed-parameter model. The sampling of the parameters are made to fall within to allow a large exploration of the parameter space.
Parameter | Value | Organism | Remarks |
---|---|---|---|
Sampled between 0.25 and 250000 | HeLa cell line | ||
Sampled between 0.001 and 1000 |