ToxDB Tutorial

Drug View

Click on Browse Drugs to get a list of all drugs currently represented in our database. Clicking on one directs you to the corresponding DrugView page where you can see the pathways that are affected most by the given drug under the specific study parameters. Those may be changed in the form at the top. The slider allows for filtering certain response score ranges. The current plot can be downloaded by clicking the "Snapshot" button, while the complete score table can be downloaded in a variety of different formats. By clicking on one of the bars, you will be redirected to the respective pathway's Expression View.

Expression View

Here you can see all the genes involved in a particular pathway and how they are affected by a certain treatment.

Pathway View

Click on Browse Pathways to get a list of all pathways currently represented in our database. Clicking on one directs you to the corresponding PathwayView page where you can see the drugs that most affect the given pathway under the specific study parameters. Those may be changed in the form at the top. The slider allows for filtering certain response score ranges. The current plot can be downloaded by clicking the "Snapshot" button, while the complete score table can be downloaded in a variety of different formats. By clicking on one of the bars, you will be redirected to respective drug's Drug View.

Differential Pathway Analysis

Click on Compare to get to the "Differential Pathway Analysis". Using this tool you can define two sets of treatments and find pathways that discriminate best between those sets.

Steps

:

1. Select some treatments from the middle form and move them to group A
2. Select some other treatments and move them to group B
3. Select a source database (or use the default "All databases")
4. Click on "Evaluate" in order to get a list of pathways discriminating between the two groups