ODE Tutorial

Browse ODE in NIF
For more information, visit ODE Homepage or the NeuroLex entry for ODE

The Ontological Discovery Environment allows users to integrate phenotype centered gene sets across species, tissue and experimental platform. Sets can be stored, shared, and compared privately, among user defined groups of investigators, and across all users.   

To find gene sets in this database, one should start with a search for any gene. In the case below, we search for Tshr, a gene known to be related to certain health conditions such as congenital hypothyroidism and autoimmune disorders.

Data from this source can be found under the Nervous System Level > Genes category.

Clicking on one of the gene results will take the user to the Ontological Discovery Environment resource at the Jackson Laboratory, shown below.

Here, the user is able to read about the Gene Set and refer to the provided publication in PubMed, if available. On the second half of the page, a list of the genes in the GeneSet will include a set of linkouts to other sites and the score associated with the specific genes. The type of score value depends on the source.

When a particular Gene Set is added to a new project, the user is able to take advantage of ODE's analysis tools on the "Analyze GeneSets" page. Projects can be selected by whole or by piece for analysis. Users can simply select Projects and/or GeneSets and then click on the button representing the analysis tool they wish to run.

For more information, please visit the Ontological Discovery Environment.