Worked example : Perturbation effect

• Log in Hipathia using login button on the top right corner, the login panel will appear. you can also login using an anonymous user. Please visit Logging in in to further information on this step.

• By clicking the Perturbation effect tool in the menu, the empty form will appear.

• Press the run example button, A study will appear on the My studies panel and will be processed.

• Once finished, click on it to open the view window.

• The view window will appear.

• Select the genes whose you want to modify its expression value. You can either click on a gene on the pathway viewer and change its value.

or search it in the Search genes… box of the Add genes panel.

• You can modify the expression level of the genes listed in the Add genes panel and remove them from the list by pressing the X button to their right. The expression level of the removed genes will return to their original value.

For this example we fix the following expression values:

• IL6

• Select the drugs targeting the objective genes if desired. We selected the “Siltuximab” drug for this example.
• Press the Update button from the Gene list panel.

The comparison is performed and the results prepared.

• Visualize the results. For further information in the interpretation of the results, see Perturbation effect results.