Fig. 1

High confidence transcriptional target (HCT) intersection analysis resolves epigenetic writer transcriptional footprints in cold challenge-regulated gene sets. In panels (A-C), nodes that have the strongest (higher odds ratio, OR) and most significant (lower p-value) footprints within the indicated cold challenge-induced gene set are distributed towards the upper right of the plot. Scatterplot showing enrichment of nodes with established roles in thermal regulation among nodes that have the most significant intersections with (A) SC vs TN-induced genes; (B) SC vs RT-induced genes; and (C) RT vs TN-induced genes. (D) HCT intersection p-values for selected epigenetic writers within cold challenge-induced genes are indicated in the form of a heatmap. HCT intersection analysis was carried out as described in the Methods section. White cells represent p > 0.05 intersections. The intensity of the color scheme is proportional to the confidence of the intersection between HCTs for a particular node and genes induced (red, ↑) or repressed (blue, ↓) in each cold challenge contrast. Lower confidence (higher p) intersections are towards the yellow end of the spectrum and higher confidence (lower p) intersections are towards the brick red end of the spectrum. Full numerical data are in Additional file 1. n = 4 per group for RNA-Seq data. TN: thermoneutral. RT: room temperature. SC: severe cold