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===Methylation Haplotype based on iPS and ES dataset=== <gallery widths=400px heights=400px> File:IPSCs-MSCs.jpg| Figure 9. PCA Analysis to GSE54769: Tissue- and Aging-specific DNA-Methylation Patterns are erased in Mesenchymal Stromal Cells derived from Induced Pluripotent Stem Cells. File:GSE54115.ips.es.hf.jpg| Figure 10. PCA Analysis to GSE54115: Aberrant DNA methylation reprogramming during iPS cell generation is dependent on the choice of reprogramming factors. </gallery> <gallery widths=400px heights=300px> File:GSE54769.HDRC.Distribution.Density.jpg|Figure 11. The distribution of the HDRs in dataset of GSE54769: Tissue- and Aging-specific DNA-Methylation Patterns are erased in Mesenchymal Stromal Cells derived from Induced Pluripotent Stem Cells. File:GSE54115.ips.hf.hdr.correlation.jpeg| Figure 12. The distribution of the HDRs in HF,Yamanaka iPS and Thomson iPS. There are 604, 381 and 592 high CpG density regions whose average correlations are larger than 0.6 in HF,Yamanaka iPS and Thomson iPS. The analysis is based on GSE54115. </gallery> * Shared high HDRC regions for GSE54115 were attached in [[File:GSE54115.Share.High.HDRC.0.6.bed.txt]] * Shared high HDRC regions for GSE54769 were attached in [[File:GSE54769.Share.High.HDRC.0.6.bed.txt]] <gallery widths=400px heights=200px> File:HDRC.PBMC.TCGA.Overalpregion.jpg|Figure 12A. Shared Methylation block regions between PBMC and TCGA-Normal dataset. File:ConservationFragtmentin450kdataset.PBMC.TCGA.Cancer.Normal.jpg|Figure 12A. Shared Methylation block regions between PBMC and TCGA Normal and Cancer dataset. File:ConservationFragtmentin450kdataset.PBMC.TCGA.Cancer.Normal.2.jpg|Figure 12C. Shared Methylation block regions between PBMC and TCGA Normal and Cancer dataset. </gallery> *Conclusion: Obviously, 1) cancer obtain some extra high correlated methylation blocks compared with normal. 2) PBMC shared large number of methylation block with normal tissues compared with cancer samples.
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