Fig. 4: scBONITA identifies dysregulated pathways in monocytes derived from AS+ and AS− PLWH.
From: Executable models of immune signaling pathways in HIV-associated atherosclerosis
a Pathways (y-axis) dysregulated in the AS+ vs. AS− contrast in monocytes derived from PLWH. Only pathways that have Bonferroni-corrected p-value < 0.01 (x-axis) and reduced ERS (see Methods for details) are shown. Pathways labeled with “***” were also significantly dysregulated in monocytes after one year of HIV infection38 b Network representation of the leukocyte transendothelial migration pathway. Small black intermediate nodes indicate that the downstream nodes are controlled by an AND function of the upstream nodes. The size of nodes corresponding to genes is proportional to their importance score as calculated by scBONITA. Nodes are colored according to the magnitude of their fold change between the HIV+AS+ and HIV+AS− groups. Violet edges indicate inhibition edges and black edges indicate activation edges.
