Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns
Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns
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DOI：
10.1093/hmg/ddp445
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发表时间：
2009-12-15
影响因子：
3.5
通讯作者：
Yang, Allen S.
中科院分区：
文献类型：
--
作者：
Byun, Hyang-Min;Siegmund, Kimberly D.;Yang, Allen S.
DNA甲基化与细胞分化、衰老、疾病和癌症有关。关于组织特异性DNA甲基化的知识基础不断扩大，但我们对个人特异性DNA甲基化的信息很少。在这里，我们使用一种高通量的全基因组DNA甲基化定量分析方法，即Illumina GoldenGate BeadArray，分析来自多个个体的多个组织的DNA甲基化模式。甲基化模式在11个不同的组织(r=0.852)和6个个体(r=0.829)中很大程度上是保守的，我们发现DNA在非CpG岛和/或未被H3K4me3或H3K27me3占据的CpG位点高度甲基化(P<；0.05)。最后，我们发现Illumina GoldenGate实验具有大量包含单核苷酸多态的探针(265/1505探针，17.6%)，这可能会干扰全基因组研究中的DNA甲基化分析。
DNA methylation is known to be associated with cell differentiation, aging, disease and cancer. There exists an expanding base of knowledge regarding tissue-specific DNA methylation, but we have little information about person-specific DNA methylation. Here, we analyze the DNA methylation patterns of multiple tissues from multiple individuals using a high-throughput quantitative assay of genome-wide DNA methylation, namely the Illumina GoldenGate BeadArray. DNA methylation patterns were largely conserved across 11 different tissues (r = 0.852) and across six individuals (r = 0.829), and we found that DNA was highly methylated in non-CpG islands and/or CpG sites that are not occupied by either H3K4me3 or H3K27me3 (P < 0.05). Finally, we found that the Illumina GoldenGate assay features a large number of probes (265/1505 probes, 17.6%) that contain single-nucleotide polymorphisms, which may interfere with DNA methylation analyses in genome-wide studies.