Chromatin markers in the casein gene cluster region in different tissues and developmental stages.

<p>This illustration is a close-up of the CSN region from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0053270#pone-0053270-g001" target="_blank">Figure 1</a>. (<b>A</b>) ChIP-seq reads for H3K4me2 in MEC isolated from virgin mammary glands at 12 weeks of age, staged at diestrus (<b>Virgin MG</b>, black), in lactating mammary glands (<b>Lactating MG</b>, blue) and in liver tissue (<b>Liver</b>, red). A summary of peaks identified by MAC and SICER are at the top of each of the Virgin MG, Lactating MG, and Liver panels. In the evolutionary conserved region (<b>ECR</b>) panel, ECRs are shown in green; ECR1, 6 16 and 21 are indicated in pink. In the bottom panel, the locations of the casein genes (black) and non-casein genes (gray) are indicated by solid arrows denoting the direction of transcription. (<b>B</b>) Summary of markers of epigenetic regulation in the CSN region. (<b><i>H3Ac</i></b>) Summary of results of ChIP for H3-acetylation on lactating mammary gland (<b>Lact</b>, blue) and liver tissue (<b>Lvr</b>, red). Sites investigated are indicated by rectangles: filled rectangles, H3AC enriched; open rectangle, non-enriched (See <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0053270#pone.0053270.s003" target="_blank">figure S3</a>). (<b><i>DHS</i></b>) Summary of DNaseI Hypersensitivity analysis in MEC isolated from from virgin mammary glands at 12 weeks of age, staged at diestrus (<b>Virg</b>, black), in lactating mammary gland (<b>Lact</b>, blue) and liver tissue (<b>Lvr</b>, red). Sites investigated are indicated by rectangles: filled rectangle, DHS; open rectangle, non-DHS (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0053270#pone.0053270.s004" target="_blank">Fig. S4</a>). (<b><i>DNAme</i></b>) Summary of results of DNA methylation analysis on lactating mammary gland (<b>Lact</b>) and liver tissue (<b>Lvr</b>) (see also Fig. 5). Levels of DNA methylation are based on Fig. 5A and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0053270#pone.0053270.s009" target="_blank">Table S2</a> and are color coded as follows: 0–20% lightest blue, 21–40% light blue, 41–60% blue, 61–80% dark blue and 80–100% black; open rectangles: not analyzed. (<b><i>K9me2</i></b>) Summary of ChIP-chip for H3K9me2, a histone modification associated with closed chromatin, on liver tissue from <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0053270#pone.0053270-Wen1" target="_blank">[62]</a>; red filled rectangle indicates enrichment of H3K9me2 in liver tissue.