Research Paper Volume 5, Issue 12 pp 867—883

Figure 3. RNA-seq analysis of repetitive element RNA expression.

(A) RNA-seq data from liver of 5, 24 and 36 month old mice (3 per group) were processed with RepEnrich software to estimate the representation of sequence tags mapping to repetitive elements. Normalized log2 counts per million values for 5 versus 36 month animals were plotted for all Repeatmasker annotated repetitive element families (see Supplemental Figure 4 for additional comparisons). Each point represents a sub-family; points above the diagonal are enriched in old animals. Point size indicates FDR-corrected significance levels. L1 and SE sub-families are highlighted (CPM, counts per million). (B) The log2 fold changes for the 118 L1 sub-families annotated in the mouse were compared pairwise between age groups (FC, fold change). (C) As in B, but comparing the 7 SE sub-families annotated in the mouse. (*) p<0.01. See Methods for details of analysis.