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Fig. 4 | BMC Genomics

Fig. 4

From: Development and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA)

Fig. 4

Validation of allele-specific DNA methylation level calculations over known gDMRs. C57BL/6 J x DBA/2 J ICM WGBS reads were processed in parallel with MEA and a published pipeline [11] using identical parameters. a Allelic methylation levels over 9 known gDMRs are shown for both pipelines. b UCSC genome browser screenshot of the Meg3 gDMR including the allele-agnostic percentage of DNAme calculated using each pipeline (total) as well as allelic calls for each informative CpG. The location of each informative CpG for each pipeline (blue tracks) is also included. Only MEA detects allele-specific reads in a region within the gDMR that lacks SNVs but contains several INDELs (dashed box). A summary of the total number of allelic CpG counts and DNAme levels over this locus is included in Table 1

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