Additional file 6: of Bilateral gene interaction hierarchy analysis of the cell death gene response emphasizes the significance of cell cycle genes following unilateral traumatic brain injury

An example of calculating the number of direct connections for the TBI-C GOI network. In IPA, the gene in question was selected (CCND2 in this example). Then, its direct connections were selected by right clicking on CCND2 and using the “select nearest neighbors” option (highlighted in purple). A list of the selected genes was exported and CCND2 was removed from the list (upper right corner). The remaining genes were counted (6 in this example) and CCND2 was ranked in the TBI-C gene interaction hierarchy (secondary tier) by this number. (TIF 4.69 mb