Additional file 3.

Figure S3. (a,b) Validation of microarray profiling by qPCR. Correlation between HmeDIP and MeDIP qPCR enrichment values (% IP/input) to log2 values seen on the promoter microarrays is presented for 5hmC (a) and 5mC (b). Trend line (red) and R₂ values are also shown. Pearson correlation values ('cor') shown alongside represent the closeness of fit between qPCR enrichment values (Y-axis) and log2 scores taken from microarray data (X-axis). Loci used for validation of HmeDIP were as follows: upstream region, 5' and 3' promoter regions of Cyp2b10, promoter regions of Tex19.1, Actb, Gapdh and H19. Loci used for the validation of MeDIP are as follows: ICRs of H19 and Gnas, intron 1 of Cyp2b10 and promoter regions of CSA, Pou3f4, Ccdc34, Tyms, Ccr1, Cbx2 and Tacr3 (see primer list in Additional file 25).

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Thomson et al. Genome Biology 2012 13:R93   doi:10.1186/gb-2012-13-10-r93