Figure 3

Heat map of LIN28 and LIN28 pseudogene methylation profile. Methylation profiles for LIN28 (A) and pseudogenes, LIN28P-CH:3 (B), LIN28P-Ch:7 (C), LIN28P:26 (D), and LIN28P-CH:28 (E), are shown for the examined tissues: testes, liver, brain, fibroblast, IVF blastocyst embryos, and oocytes. The total number of sequencing reads is indicated next to each sample. The average percentage methylation of CpG sites within the entire amplicon is shown for each pseudogene. Each heat map cell indicates the percentage of CpG sites positive for methylation. Yellow indicates high methylation and blue low methylation. Each CpG site corresponds to a number indicated above each sample that indicates the placement of each CpG site in relation to the protein-coding region. CpG sites of pseudogenes that do not correspond to a CpG location within the LIN28 parental gene are represented by ‘n’. See Additional file 1: Figures S1-S4 for placing these CpG sites in sequence context for each of the pseudogenes. See Additional file 1: Figures S5-S9 for heat map representations of methylation for all sequence reads across samples for each pseudogene.