Dynamic epigenetic mode analysis using spatial temporal clustering

Gan, YangLan; Tao, Han; Zou, Guobing; Yan, Cairong; Guan, Jihong

doi:10.1186/s12859-016-1331-z

BMC Bioinformatics

Table 1 The top 10 co-occurred epigenetic modifications in different cell types during the differentiation process

From: Dynamic epigenetic mode analysis using spatial temporal clustering

	H1	Mesendoderm	Trophoblast-like cells	Mesenchymal stem cells	Neuronal progenitor cells
1	H3K4me2,H3K4me1, H2aK5ac,H3K27ac, H2bK5ac,H3K23ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac, H2bK120ac	H3K4me2,H3K4me1, H3K27ac,H3K23ac, H3K9ac,H3K18ac	H2aK5ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac, H2bK120ac,H3K18ac	H3K4me2,H3K36me3, H3K27ac,H2bK5ac, H3K23ac,H3K9me3, H3K4ac,H3K9ac, H2bK120ac	H3K4me1,H3K36me3, H2aK5ac,H3K27ac, H2bK5ac,H3K27me3, H3K23ac,H3K79me1, H3K9ac,H2bK120ac
2	H2aK5ac,H2bK5ac, H3K23ac,H3K79me1, H3K4ac,H2bK120ac	H3K4me2,H3K4me1, H3K27ac,H3K23ac, H3K9ac,H2bK120ac	H3K4me1,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac, H2bK120ac,H3K18ac	H3K4me2,H3K36me3, H2bK5ac,H3K23ac, H3K4ac,H2bK120ac	H3K4me1,H3K36me3, H3K27ac,H2bK5ac, H3K27me3,H3K9me3, H3K79me1,H3K9ac, H2bK120ac
3	H2bK5ac,H3K27me3, H3K23ac,H3K79me1, H3K4ac,H3K9ac	H2aK5ac,H2bK5ac, H3K79me1,H3K4ac, H2bK120ac,H3K18ac	H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K18ac	H3K36me3,H2aK5ac, H2bK5ac,H3K23ac, H3K9me3,H3K4ac H3K9ac	H3K4me2,H2aK5ac, H3K23ac,H3K9me3, H3K4ac,H2bK120ac
4	H3K4me2,H3K4me1, H2aK5ac,H3K27ac, H2bK5ac,H3K27me3, H3K23ac,H3K79me1, H3K4ac,H3K9ac,H3K18ac	H3K4me1,H3K36me3, H3K27ac,H3K23ac, H3K79me1,H3K4ac, H3K9ac,H2bK120ac, H3K18ac	H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H2bK120ac	H3K36me3,H2aK5ac, H2bK5ac,H3K23ac, H3K4ac,H3K9ac	H3K4me2,H2aK5ac, H3K23ac,H3K9me3, H3K9ac,H2bK120ac
5	H2bK5ac,H3K27me3, H3K23ac,H3K79me1, H3K4ac,H3K18ac	H3K27ac,H3K27me3, H3K9me3,H3K4ac, H2bK120ac,H3K18ac	H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K9ac	H3K4me2,H3K36me3, H2bK5ac,H3K23ac, H3K9me3,H3K9ac	H3K27ac,H2bK5ac, H3K27me3,H3K9me3, H3K9ac,H2bK120ac
6	H2aK5ac,H2bK5ac, H3K9me3,H3K79me1, H3K4ac,H2bK120ac	H3K4me2,H3K27ac, H3K9me3,H3K4ac, H2bK120ac,H3K18ac	H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1	H3K36me3,H2aK5ac, H2bK5ac,H3K9me3, H3K4ac,H2bK120ac	H3K27ac,H2bK5ac, H3K27me3,H3K9me3, H3K4ac,H2bK120ac
7	H2aK5ac,H2bK5ac, H3K23ac,H3K79me1, H3K4ac,H3K9ac	H3K4me2,H3K4me1, H3K27ac,H3K27me3, H3K9me3,H3K18ac	H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K4ac	H3K4me2,H3K36me3, H2bK5ac,H3K23ac, H3K9me3,H3K4ac	H3K4me2,H3K4me1, H3K23ac,H3K9me3, H3K9ac,H2bK120ac
8	H3K4me2,H2aK5ac, H3K27ac,H2bK5ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac,H3K18ac	H3K4me2,H3K4me1, H3K27ac,H3K27me3, H3K4ac,H3K18ac	H3K4me2,H3K27ac, H3K27me3,H3K23ac, H3K9me3,H3K9ac	H3K4me2,H3K36me3, H2bK5ac,H3K23ac, H3K4ac,H3K9ac, H2bK120ac	H3K4me2,H3K4me1, H3K23ac,H3K9me3, H3K4ac,H2bK120ac
9	H3K4me2,H3K4me1, H2aK5ac,H3K27ac, H2bK5ac,H3K23ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac H3K18ac	H3K4me2,H3K4me1, H3K27ac,H3K27me3, H3K4ac,H2bK120ac	H3K4me1,H3K27ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1	H3K4me2,H3K4me1, H3K9me3,H3K4ac, H3K9ac,H2bK120ac	H3K4me2,H3K4me1, H3K36me3,H2aK5ac, H3K27me3,H3K23ac, H3K79me1,H3K9ac, H2bK120ac
10	H2aK5ac,H2bK5ac, H3K9me3,H3K79me1, H3K4ac,H3K9ac	H3K4me2,H3K27ac, H3K27me3,H3K4ac, H2bK120ac,H3K18ac	H3K4me1,H3K27ac, H3K27me3,H3K23ac, H3K9me3,H3K79me1	H3K4me2,H3K36me3, H2bK5ac,H3K23ac, H3K9me3,H2bK120ac	H3K4me2,H3K4me1, H2aK5ac,H3K27ac, H3K9me3,H3K9ac, H2bK120ac

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