Detailed information about the enrichment for a particular term is available by clicking on the link within the 'Term Name' column of the table on the main output page. The output is segmented into three sections, each described in detail below.
Genomic region/gene association tables
These tables are analogous to how the genomic region and gene associations file links each input genomic region to the gene(s) it putatively regulates according to the association rule used. The difference is that only the associations that are relevant for the term of interest are included in the tables. For example, say the user provides an input set of five genomic regions which have the following associations:
Furthermore, assume an ontology has a term 'Term.A', and the genes Gene.1, Gene.5, Gene.6, Gene.7, Gene.8 are annotated with Term.A. Then the term details page for Term.A would have the following region->gene association table:
In particular, the genomic regions Input.3 and Input.4 are not listed since they are not predicted to regulate genes involved in Term.A, and the association of Input.2 to Gene.2 is not listed since Gene.2 is not involved in Term.A.
The gene->region association table provides the identical information as the region->gene table, but grouped by gene rather than by region. So, for the example above, the gene->region table would be:
Each gene in both tables is also a hyperlink. When clicked, the user is taken to the UCSC Genome Browser at the position of the entire regulatory domain used to associate genomic regions to that gene given the association rule used. Additionally, the same custom tracks loaded with the user's data are provided.
Genomic region and gene association plots
The plots shown on the term details page are created in a similar manner to the genome-wide association plots. However, the observed data only includes associations between regions and genes annotated with the ontology term of interest. Additionally, the term genome-wide expectation is calculated in the same manner as the entire genome-wide expectation but only considering associations to all genes annotated with the ontology term of interest.
Additional ontology information
Where possible, information on the ontology term from the source website from which the ontology was curated is displayed as a frame within the page.
Previous GREAT release term details pages
In GREAT 1.7 and below, neither the region/gene distance plots nor explicit links between regions and genes were available. Instead, a list of all implicated regions and a separate list of all implicated genes was provided. The additional ontology information was also available.