The gene view

The gene view displays the different GO terms that were predicted for each gene by Gonna. These predicted terms are shown in a hierarchical way which follows the ontology structure. There are three gene views for each gene, which correspond to the three GO ontologies. Each term is followed by its prior probability, the global degree of belief (GDB) of the prediction, and the confidences (TDR) associated with all data sources that support it. Moreover, for genes that already possess GeneDB annotations in the selected ontology, a '+' symbol after the term name indicates that this term already annotates this gene in GeneDB.

GDBs and TDRs are displayed with a color code that goes from red (0%) to light green (100%) via yellow (50%). Non-significant TDRs are in grey. The "no" entry indicates that the data source does not support the prediction, while "-" means that no data are available in the source for this gene.

By clicking on a TDR, the K characterized nearest neighbors that support/does not support this prediction are shown, along with their associated profiles (for the transcriptomic and proteomic sources). Moreover, by passing over any TDR an info bubble appears, which provides the p-value of the Fisher test and the number of characterized genes used to estimate this TDR. Clicking on any term opens the corresponding GO term view.

Gene views can be accessed by querying for a gene in the top banner, or by clicking on a gene name in the GO term view.

Printing: Several web browsers do not handle long tables printing. One solution is then to select, copy and paste the table into Excel or the OpenOffice spreadsheet. This provides ready to print documents that preserve the colors of the html pages.