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| == The effect of varying oxygen availabilty on Geobacillus == In this practical we will be investigating the the potential effects of limiting oxygen availability to a model of the organism ''Geobacillus thermoglucosidasius ''described [[http://www.ncbi.nlm.nih.gov/pubmed/28385593|here]]. In order to do this, we will be using the constraint scanning approach described in lecture 7. Geobacillus is a facultative aerobe this has been demonstrated experimentally and in the paper linked above we investigated aerobic and anaerobic metabolism. What we did not investigate is the situation in which oxygen is reduced but not completely absent, so, as well as being a new practical, this is also a new investigation - results generated here will be genuinely new - no-one will ever have seen them before! |
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| == The effect of varying oxygen availabilty on Geobacillus == Ref to paper |
In order to perform the analysis we will be introducing a new class of object from !ScrumPy, the !''DataSet. ''As the name implies, it's purpose is to store and maniplulate data either generated by model, or from an external source, or both. It has many of the same properties of a matrix, but in addition is capable of simple graph plotting and statistical analysis. |
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Practical 7
The effect of varying oxygen availabilty on Geobacillus
In this practical we will be investigating the the potential effects of limiting oxygen availability to a model of the organism Geobacillus thermoglucosidasius described here. In order to do this, we will be using the constraint scanning approach described in lecture 7. Geobacillus is a facultative aerobe this has been demonstrated experimentally and in the paper linked above we investigated aerobic and anaerobic metabolism. What we did not investigate is the situation in which oxygen is reduced but not completely absent, so, as well as being a new practical, this is also a new investigation - results generated here will be genuinely new - no-one will ever have seen them before!
In order to perform the analysis we will be introducing a new class of object from ScrumPy, the !DataSet. As the name implies, it's purpose is to store and maniplulate data either generated by model, or from an external source, or both. It has many of the same properties of a matrix, but in addition is capable of simple graph plotting and statistical analysis.
Download the file P7.tgz into the area in whch you have been using for your other practicals.
- This is a compressed archive file and you will need to extract the files before they can be used:
$ tar -zxf P7.tgz