Differences

This shows you the differences between two versions of the page.

--- worked_example [2015/12/28 10:38] – created mhidalgo
+++ worked_example [2017/05/24 15:27] (current) – external edit 127.0.0.1
@@ Line 1: / Line 1: @@
 ====== Worked example ======
-**1-** Log in into PathAct. For further information on this step visit [[logging_in|Logging in]].
-**2-** Press the //Load example file// button from the Expression matrix files panel. When the example is loaded, select the
+  * Log in **PathAct** using the login button on the top right corner, the login panel will appear.
+{{ :login.png?400 |}}
+  * You can also login as anonymous using the start button.
+{{ :start.png?400 |}}
+  * Press the run example button, A job will appear on the right and will be processed.
+{{ :exrun.png?800 |}}
+{{ :exrunning.png?600 |}}
+{{ :exfinishing.png?600 |}}
+  * Once finished, click on it to open the view window.
+{{ :exready.png?600 |}}
+  * The view window will appear.
+ {{ :view.png?800 |}}
+  * Select the genes whose expression you want to modify. You can either click on a gene on the pathway viewer and change its value
+{{ :pathact_change1.png?200 |}}
+or search it in the //Search genes...// box of the //Gene list// panel.
+{{ :pathact_change2.png?200 |}}
+You can modify the expression level of the genes listed in the //Gene list// and remove them from the list by pressing the close 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:
+  * VEGFA 0.9
+  * AKT3 0
+  * NFKB1 0.1
+  * KDR 0.99
+{{ :pathact_example_values.png?200 |}}
+  * Select the drugs targeting the objective genes if desired. We don't select any drug for this example.
+  * Press the //Update// button from the Gene list panel.
+{{ ::pathact_update.png?200 |}}
+The comparison is performed and the results prepared.
+{{ :pathact_updating.png?400 |}}
+  * Visualize the results. For further information in the interpretation of the results, see [[results|Results]].
+{{ :pathact_example_results.png?800 |}}