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Fig. 1 | BMC Genomics

Fig. 1

From: Genome-wide effects of social status on DNA methylation in the brain of a cichlid fish, Astatotilapia burtoni

Fig. 1

Example DMRs with schematic illustration of regulatory region DMR types. a-c: Raw methylation ratios (colored dots) and smoothed methylation values (colored lines, y-axis) for CpGs with more than 4x coverage (grey vertical lines) in every fish are colored by social state (green = dominant, blue = nondominant), while the relevant parts of the genome are schematized below following (d), including non-coding and protein-coding exons, introns, and 5′ or 3′ ends (x-axis). Pink shading shows the extent of each DMR. As illustrated, (a), UBX domain protein 4 (ubxn4) had a type-2 regulatory region DMR that overlapped its transcription start site; (b), ubiquitin specific peptidase 32 (usp32) had a type-2 regulatory region DMR within its 3′ untranslated region; and (c), hes-related family bHLH transcription factor with YRPW motif 2 (hey2) had a DMR that extended from its last intron to cover its last protein-coding exon. d: We classified three different types of DMRs in regulatory regions schematized as shown in a hypothetical genomic region with two genes in antisense orientation. Type-1: within 5 kb of a gene but outside the body. Type-2: overlapping any of the first or last 1 kb of a gene. Type-3: a type-1 or type-2 DMR for one gene that was also within the body of another gene on the opposite strand

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