Difference between revisions of "Optimization examples"
From BioUML platform
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Here we give some examples of [[BioUML]] using for solving the problem of parameter estimation applied to the models of biochemical pathways. | Here we give some examples of [[BioUML]] using for solving the problem of parameter estimation applied to the models of biochemical pathways. | ||
For details about creation your oun optimization document in BioUML, see the chapter [[Optimization document]]. Some information about the optimization methods implemented in BioUML is done in the chapter [[Optimization problem]]. | For details about creation your oun optimization document in BioUML, see the chapter [[Optimization document]]. Some information about the optimization methods implemented in BioUML is done in the chapter [[Optimization problem]]. | ||
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| + | <table border="0" cellspacing="0" cellpadding="4"> | ||
| + | <tr> | ||
| + | <td>[[File:optimization_examples_model_1.png|thumb|The model of p53 and Mdm2 interactions]]</td> | ||
| + | <td> </td> | ||
| + | <td> | ||
| + | <table border="1" align="center" cellspacing="0" cellpadding="4"> | ||
| + | <tr> | ||
| + | <td>'''ID'''</td> | ||
| + | <td>'''Reactions'''</td> | ||
| + | <td>'''Reaction rates'''</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>r1</td> | ||
| + | <td>→ p53</td> | ||
| + | <td>''β<sub>x</sub>''</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>r2</td> | ||
| + | <td>-p53 → pMdm2</td> | ||
| + | <td>''x''</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>r3</td> | ||
| + | <td>pMdm2 → Mdm2</td> | ||
| + | <td>''α''<sub>0</sub> · ''y''<sub>0</sub></td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>r4</td> | ||
| + | <td>p53 -Mdm2 →</td> | ||
| + | <td>''α<sub>xy</sub>'' · ''x'' · ''y''</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>r5</td> | ||
| + | <td>Mdm2 →</td> | ||
| + | <td>''α<sub>y</sub>'' · ''y''</td> | ||
| + | </tr> | ||
| + | </table> | ||
| + | </td> | ||
| + | </tr> | ||
| + | </table> | ||
Revision as of 16:22, 14 March 2019
Here we give some examples of BioUML using for solving the problem of parameter estimation applied to the models of biochemical pathways. For details about creation your oun optimization document in BioUML, see the chapter Optimization document. Some information about the optimization methods implemented in BioUML is done in the chapter Optimization problem.
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