Fig. 2

Total TEs expression at different SG developmental stages. A. Volcano plots depicting comparisons for all SG developmental stages, from E16.5 onwards, all with respect to E14.5. For each volcano plot, up- and down- regulated TEs are shown in red and blue circles respectively; gray circles indicate all TEs without statistically significant changes in expression. Upper-left and upper-right numbers for each volcano plot indicate the total number of down-regulated (blue) and up-regulated TEs (red), respectively. B. Heatmap depicting differentially expressed (DE) TEs (N = 9625) during all SG developmental stages. TEs were clustered according to their patterns of expression using the k-means clustering. Different clusters of expression are indicated (C1 to C6), color coded at the left of the heatmap. The range of expression values is shown to the right (red, positive values; blue, negative values). All developmental stages, from embryonic (E) to postnatal (P) days, are indicated in chronological order, and the arrow indicates direction of development