Summary of count data and candidate SAT repeat elements. (a) Heatmap of log2 normalized read counts for CTRL and EsCM patients across repeat elements. The rows were scaled such that every row has μ = 0 and σ = 1. The color bar on the vertical axis represents families of repeat elements. A fully annotated large-scale heatmap is available in Additional file 3. (b) A bar chart representing the number of repeat sequences per family. (c-j) The groupwise log2 normalized read counts. The two groups were compared using unpaired Welch's t-test followed by adjustment for multiple comparisons. ALR_ methylation was significantly different between the CTRL and EsCM group (* P < 0.05) while ALR, ALR1, and ALRb methylation levels were highly significantly different between the two groups (** P < 0.01).
Haider et al. Genome Biology 2012 13:R90 doi:10.1186/gb-2012-13-10-r90