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=Example file= | =Example file= | ||
− | You can download it here -> | + | You can download it here -> |
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[[Image:IntegrateRegulatoryModel.png]] | [[Image:IntegrateRegulatoryModel.png]] | ||
− | <b>1. <i>Select Project and Model</i></b | + | <b>1. <i>Select Project and Model</i></b> |
− | You can select the model/project to integrate the regulatory model. | + | |
+ | You can select the model/project to integrate the regulatory model. | ||
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<br> | <br> | ||
− | <b>2. <i>File Options</i></b> | + | <b>2. <i>File Options</i></b> |
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You can select the regulatory model file. In our example the regulatory model file name is '''toy.regNet'''. | You can select the regulatory model file. In our example the regulatory model file name is '''toy.regNet'''. | ||
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Here you can select the reaction to optimize (biomass, by default), and you can also define if you will be maximizing or minimizing that flux.<br> | Here you can select the reaction to optimize (biomass, by default), and you can also define if you will be maximizing or minimizing that flux.<br> | ||
<br> | <br> | ||
− | <b>4. <i>Set Regulatory Variables</i></b><br> | + | <b>4. <i>Set Regulatory User Variables</i></b><br> |
Here you can define the value of all regulatory user variables, and see the values of the model variables.<br> | Here you can define the value of all regulatory user variables, and see the values of the model variables.<br> | ||
<br> | <br> | ||
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===How to determining essential genes=== | ===How to determining essential genes=== | ||
− | *You can access the | + | *You can access the "Compute Critical Regulatory Genes" option under the "Plugins->Regulatory Tool->Critical Information" menu or by right clicking on the Integrated Model icon on the clipboard. |
[[Image:PathForCriticalGenes.png]]<br> | [[Image:PathForCriticalGenes.png]]<br> | ||
<br> | <br> | ||
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==How to optimise the gene knockouts set== | ==How to optimise the gene knockouts set== | ||
− | + | [[Image:PathForSimAndOpt.png]] | |
− | [[Image:PathForSimAndOpt.png]] | + | |
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[[Image:IntegrateOptimizationOperation.png]] | [[Image:IntegrateOptimizationOperation.png]] | ||
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[[Image:ClipboardAfterIntegrateOptimization.png]] | [[Image:ClipboardAfterIntegrateOptimization.png]] |