Fig. 3
Candidate genes discriminating responders from non-responders. a Combined P values presented as Manhattan plot for differently methylated DMRs between responders vs. non-responders on a genome-wide scale; blue dots indicate regions were responders showed significantly lower, green dots significantly higher methylation levels compared to non-responders; genes marked with a star remained significant after correction for multiple testing (adj. P < 0.05), b Methylation levels at the identified genes between responders and non-responders presented as box plots (normalized ß values) with whiskers representing min and max values, **P < 0.001; ****P < 1 × 10−4. c ChromHMM prediction for the significant DMRs (adj. P < 0.05). To identify putative target genes in the phenotype relevant target tissues: Intestine (Fetal-Intestine-Large, Fetal-Intestine-Small, Small-Intestines), Adipos-Nuclei (Adipose-Nuclei), AdiposeTissue (Adipose-Nuclei, Adipose-Derived-Mesenchymal-Stem-Cell-Cultured-Cells, Mesenchymal-Stem-Cell-Derived-Adipocyte-Cultured-Cells), Adipocytes (Mesenchymal-Stem-Cell-Derived-Adipocyte-Cultured-Cells), Adipocytes2 (Adipose-Derived-Mesenchymal-Stem-Cell-Cultured-Cells) Liver (Liver), Muscle (HSMM-cell-derived-Skeletal-Muscle-Myotubes-Cells, HSMM-Skeletal-Muscle-Myoblasts-Cells, Skeletal-Muscle-Female, Skeletal-Muscle-Male), and all (all 134 cells from Roadmap Epigenome Gateway). ChromHMM coding for TssA-active TSS, TssBiv-Bivalent (Poised) TSS, BivFlnk-Bivalent Flanking, EnhBiv-Bivalent Enhancer, ReprPC-Polycomb Repressed, ReprPCWk-Weakly Polycomb Repressed, Quies-Quiescent/low, TssAFlnk-Flanking TSS, TxFlnk-Flanking Transcribed, Tx-Transcribed, TxWk-Weakly Transcribed, EnhG- Genetic Enhancer, Enh –Enhancer, ZNF/Rpts-ZNF Genes and Repeats, He-Heterochromatin