Figure 3

Size and color provide users with a rapid mechanism to evaluate data, and zooming allows access to details about genes of interest. (A) The "legend" section (red circle) of the control panel in the bottom right region of the display allows users to assign "label", "size", and "color" to qualitative or quantitative data (red box). Label has been assigned to the fixed symbol category (common gene name), size has been assigned to absolute average fold change in RNA level, and color has been assigned to the p-value of a t-test. "User defined bins" (red circle) were selected from a scroll down window in the control panel to assist with rapid identification of significant p values. Significant values between 0 and 0.05 were colored from red to yellow while insignificant values greater than 0.05 were colored black. Large boxes represent genes with large changes in RNA level. (B) Treemap users can zoom on details by double-clicking on an area of interest. For example, programmed cell death involves the degradation cells components, and this is known to require the activity of peptidase (protease) enzymes. By double-clicking and zooming on the peptidase activity category (red circle) and selecting cysteine-type peptidase (red circle and outlined in yellow), the user immediately obtains details including that 23 gene nodes are present (red box in details of selected node), that most of the boxes are large and red, and that the Caspases Nc (Dronc) and Ice (Drice) are present.