Figure 5

Comparative analysis between P _i ^starvdata and AtGenExpress. Subfigure (a) depicts a network of interactions between several types of treatment (blue squares) and genomic loci (other nodes) represented by probes on the ATH1 micro-array. Edges/lines are drawn between treatments and loci if the locus is differentially regulated in the treatment as compared to its control (see Additional file 9). (b) A pie chart summarizing the degree to which loci were found to interact with AtGenExpress treatments. Seventy percent of P_i-responsive loci are found to interact with nothing else, whereas 21% interact with 1 other AtGenExpress treatment and 1% interact with 4 AtGenExpress treatments. (c) Stacked histogram breaking down the degree of interactivity in terms of locus counts (y-axis) between various AtGenExpress treatments (x-axis). From bottom-to-top the stacked bars indicate the contributions made by the initial, persistent, and latent responses. (d) A plot describing the minimum threshold required (y-axis; p-value: blue; corrected: green) in order to detect a locus (x-axis; ranked by y-axis) as being differentially regulated in at least 1 AtGenExpress treatment. A dotted green line indicates the default threshold used by our analysis that results in 380 loci being detected in at least 1 AtGenExpress treatment and are therefore classified as non-specific. (c) A plot identical to (d), except only a subset of loci (x-axis) that are known to be P_i-responsive are displayed.