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. 2018 Jul 2;8:125. doi: 10.1038/s41398-018-0167-x

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — a MIA-induced DMRs plotted against chromosome locations, with Track1: mouse genome with cytobands. Track2: connectors between the gene names to the chromosome location. Track3: differentially methylated genes connected to the locations. Track4: red dots indicating hypermethylated sites and blue dots indicating hypomethylation. Track5: CpG site distance to the gene; red indicates after transcription start site (TSS) and blue indicates before TSS. Track6: negative log q-values for the corresponding CpG sites at that genomic location. Track8: comparison of Δmethylation distribution detected from MIA effect and omega-3 effect. Y axis indicates percentage Δmethylation values, x axis represents CpG sites from 165 stabilised genes. b Quantile–Quantile plot for MIA-induced differentially methylated CpG sites, ‘observed’ p values are plotted on the y axis against ‘expected’ values on the x axis. The red line indicates the distribution of p value under the null progression. Control group comparison is expected to follow the null and is plotted to check the level of ‘noise’. c Quantile–Quantile plot for differentially methylated CpG sites following dietary intervention. Observed p values are plotted observed on y axis against expected values on x axis. The red line indicates the distribution of p value under the null progression. Control group comparison is expected to follow the null and is plotted to check the level of ‘noise’. d Methylation profile of genes affected by MIA after n-3 intervention. (1) 165 genes stabilised by n-3 PUFA dietary intervention (Orange); (2) 40 genes affected by MIA but not affected by n-3 PUFA (Blue) and (3) not altered by MIA but altered by n-3 PUFA diet (Green)