Figure 3. Rv0494 as an example of widespread binding and local gene regulation.

Rv0494 binding and regulation of gene expression was plotted using Circos⁵⁹, with sense (blue) and antisense (orange) CDS and operon boundaries illustrated with black edges. The Rv0494 gene locus is positioned at ~2 o’clock, and ChIP binding sites are denoted at the terminus of each edge radiating out from Rv0494 (peaks of p<0.001 indicated by purple lines, 0.001<p<0.01 indicated by yellow lines). Rv0494 consensus motifs corresponding to peak significance thresholds are indicated by the color-matched ribbons. Genes that exhibit significant differential regulation (>2-fold change with empirical Bayes method p<0.01 from 5 biological replicate microarrays) upon induction of Rv0494 are indicated by blue (gene repression) and red (gene induction) bars. The Rv0494 ChIP binding site between regulated genes Rv3094c-Rv3095 is shown connected by a gray ribbon.