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Mutation Model
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(New page: =ParI Mutation Model= ==Hypothesis== #The mutation efficiency should remain a continuous curve along reproduction, or along time. Here we discrete the mutation rate to be linear function a...) |
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==Hypothesis== | ==Hypothesis== | ||
#The mutation efficiency should remain a continuous curve along reproduction, or along time. Here we discrete the mutation rate to be linear function according to the replication time (), which in fact create several discontiguous point. | #The mutation efficiency should remain a continuous curve along reproduction, or along time. Here we discrete the mutation rate to be linear function according to the replication time (), which in fact create several discontiguous point. | ||
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#The whole yeast is large enough to obey the statistics rules | #The whole yeast is large enough to obey the statistics rules | ||
==Model Construction== | ==Model Construction== | ||
| + | #Probability Model <br>For each DNA sequence status, we take down a probability matrix for the coding sequence, which gives out each base appearance possibility on every site. The structure on each site is 5*1 matrix,(P<sub>a</sub>,P<sub>t</sub>,P<sub>c</sub>,P<sub>g</sub>,P<sub>u</sub>), and ΣP=1. Therefore, the whole sequence status is recorded as 5*length matrix.E.g. For the Gal4 DNA, with a length of 2646, one status is a 5*2646 matrix. | ||
| + | #Scanning Model<br>The hotbox appearance rate on a specific site i is calculated as below. | ||
Revision as of 15:39, 29 October 2008
Part I Mutation Model
Hypothesis
- The mutation efficiency should remain a continuous curve along reproduction, or along time. Here we discrete the mutation rate to be linear function according to the replication time (), which in fact create several discontiguous point.
- DNA lesion repair rate appears high enough in replication than other cell activities, so that the DNA lesion repair rate can be conformed to background mutations except in replication process.
- The whole yeast is large enough to obey the statistics rules
Model Construction
- Probability Model
For each DNA sequence status, we take down a probability matrix for the coding sequence, which gives out each base appearance possibility on every site. The structure on each site is 5*1 matrix,(Pa,Pt,Pc,Pg,Pu), and ΣP=1. Therefore, the whole sequence status is recorded as 5*length matrix.E.g. For the Gal4 DNA, with a length of 2646, one status is a 5*2646 matrix. - Scanning Model
The hotbox appearance rate on a specific site i is calculated as below.
