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4. Obtaining simple statistics for the predictions obtained for the uploaded dataset

Every element in OpenTox is identified with a URI, be it a dataset, a model, an algorithm, etc. The same holds for the prediction feature obtained when applying a model to a dataset. Each OpenTox model creates prediction features that have a unique ID. Let's try to find the prediction feature URI of an example model: the ToxTree: Cramer rules.

Go to the Ambit2 OpenTox web application at Follow the "Models" link at the top of the page (5th link from left). Find the ToxTree: Cramer rules model and click on its name.

Get feature URI step 1

We want to know the URI of the prediction feature, thus click on the "Predicted" link of the ToxTree: Cramer rules model.

Get feature URI step 2

The "Predicted" link lists all the prediction features of the model. Get the feature URI either by right-clicking the prediction feature's name and selecting "Copy Link Location" (Firefox) or "Copy Shortcut" (Internet Explorer), or by left-clicking the feature's name and copying the feature URI from your browsers address bar. In this case, the feature URI is

Get feature URI step 3

 This process would have to be repeated for all selected models, keeping a list in a text file of model names and their feature URIs. Find such a list provided below:

  • ToxTree: Structural Alerts for the in vivo micronucleus assay in rodents:
  • START biodegradation and persistence plug-in:
  • ECOSAR LC50 fish:
  • ToxTree: Verhaar scheme for predicting toxicity mode of action:
  • ToxTree: Cramer rules:
  • ToxTree: Benigni/Bossa rules for carcinogenicity and mutagenicity:   and
  • ToxTree: Skin irritation:
  • ToxTree: Skin sensitisation alerts (M. Cronin):
  • ToxTree: Eye irritation:


You can get simple statistics for the results obtained with each model for our dataset at the URL below. The example is for the ToxTree:Cramer rules model. Note that the feature URI we identified before is at the end of the URI. Essentially, the URL consists of three parts:    identifies the statistics tool we want to use,
dataset_uri=    specifies the dataset for which we want to use the tool, and
feature_uris[]=    specifies that we want to analyze the ToxTree: Cramer rules feature of the dataset.

Go ahead and click on the link below to see the statistics obtained with ToxTree: Cramer rules for our dataset (for convenience, open it in a new tab):[]=

The URL shows the statistics for the ToxTree: Cramer rules model. If you want to see the chart for another model, replace the feature URI in the URL using the list above (Note: is the same for all feature URIs, so you only need to replace the number).


Next Step: 5. Adding the predicted values to a tabular view of the dataset and downloading the table

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