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Team:Carnegie Mellon/KRModel
From 2013.igem.org
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<li>mRNA synthesis: adapted from Kennell and Riezman 1977.</li> | <li>mRNA synthesis: adapted from Kennell and Riezman 1977.</li> | ||
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<li>mRNA degradation: Bernstein, Lin, Cohen, and Lin-Chao 2002.</li> | <li>mRNA degradation: Bernstein, Lin, Cohen, and Lin-Chao 2002.</li> | ||
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<li>KillerRed synthesis: from Kennell and Riezman 1977 and our own fluorescence data</li> | <li>KillerRed synthesis: from Kennell and Riezman 1977 and our own fluorescence data</li> | ||
| - | + | <li>Superoxide production: adapted from Tsien and Waggoner 1995; Song, Hennink, Young, and Tanke 1995; and our own fluorescence data.</li></ul></p> | |
| - | <li>Superoxide production: adapted from Tsien and Waggoner 1995; Song, Hennink, Young, and Tanke 1995; and our own fluorescence data.</li></p> | + | |
Revision as of 21:58, 26 September 2013
Intracellular model
The intracellular model attempts to simulate the synthesis and action of KillerRed using ordinary differential equations over three stages of a typical photobleaching expeiment: induction at 37ºC, storage at 4ºC to allow for protein maturation, and photobleaching at room temperature. It includes:
- mRNA synthesis and degradation
- KillerRed synthesis, maturation, and degradation
- KillerRed states: singlet, singlet excited, triplet excited, and deactivated
- Superoxide production (by KillerRed)
- Superoxide elimination (by superoxide dismutase)
Parameters:
- mRNA synthesis: adapted from Kennell and Riezman 1977.
- mRNA degradation: Bernstein, Lin, Cohen, and Lin-Chao 2002.
- KillerRed synthesis: from Kennell and Riezman 1977 and our own fluorescence data
- Superoxide production: adapted from Tsien and Waggoner 1995; Song, Hennink, Young, and Tanke 1995; and our own fluorescence data.
