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*[http://ccy.zcu.cz/files/ZMB_2016/Lectures/Lecture2.pdf LECTURE 2 (Genetic network schematics)] | *[http://ccy.zcu.cz/files/ZMB_2016/Lectures/Lecture2.pdf LECTURE 2 (Genetic network schematics)] | ||
*[http://ccy.zcu.cz/files/ZMB_2016/Lectures/Lecture3.pdf LECTURE 3 (Solving Chemical Reaction Networks)] | *[http://ccy.zcu.cz/files/ZMB_2016/Lectures/Lecture3.pdf LECTURE 3 (Solving Chemical Reaction Networks)] | ||
| + | *for lectures on gene expression, one-node, two-node, three-node, multi-node motifs see notes | ||
| + | |||
| + | Assignment | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/ASSIGNMENT/FinalProject_2017_en.docx Final Project] | ||
MATLAB | MATLAB | ||
| − | * | + | *[http://ccy.zcu.cz/files/ZMB_2017/MATLAB/gelProcess.m gelProcess.m (Matlab script for computing gel intensities)] |
| + | *[http://ccy.zcu.cz/files/ZMB_2017/MATLAB/plotshaded.m plotshaded.m (Matlab support function for plotCells.m)] | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/MATLAB/plotCells.m plotCells.m (Matlab function for plotting CeCe results)] | ||
| + | * example call of plotCells.m: | ||
| + | plotCells('molecules.csv','RFP',{'GFP','RFP','LACI','LACIi','G','Gi','Ga','Gia','ARA','ARAC','ARACa'},10,1,1) | ||
| + | |||
| + | CECE | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/CECE/channel-straight.svg channel-straight.svg (straight channel topology)] | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/CECE/channel-chamber.svg channel-chamber.svg (example of a channel chamber)] | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/CECE/ZMB_NAR.cece ZMB_NAR.cece (NAR simulation file)] | ||
| + | |||
| + | |||
| + | |||
| + | EXPERIMENTS | ||
| + | *[http://ccy.zcu.cz/files/ZMB_2017/EXPERIMENTS/2017_03_17_PCR_kinetics.jpg Agarose gel electrophoresis for PCR kinetic assay] | ||
Latest revision as of 13:53, 12 May 2017
Lectures
- LECTURE 1 (Overview of Synthetic Biology)
- LECTURE 2 (Genetic network schematics)
- LECTURE 3 (Solving Chemical Reaction Networks)
- for lectures on gene expression, one-node, two-node, three-node, multi-node motifs see notes
Assignment
MATLAB
- gelProcess.m (Matlab script for computing gel intensities)
- plotshaded.m (Matlab support function for plotCells.m)
- plotCells.m (Matlab function for plotting CeCe results)
- example call of plotCells.m:
plotCells('molecules.csv','RFP',{'GFP','RFP','LACI','LACIi','G','Gi','Ga','Gia','ARA','ARAC','ARACa'},10,1,1)
CECE
- channel-straight.svg (straight channel topology)
- channel-chamber.svg (example of a channel chamber)
- ZMB_NAR.cece (NAR simulation file)
EXPERIMENTS
