Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns

被引：195

作者：

Byun, Hyang-Min ^{[1
]}

Siegmund, Kimberly D. ^{[2
]}

Pan, Fei ^{[4
,5
]}

Weisenberger, Daniel J. ^{[4
,5
]}

Kanel, Gary ^{[3
]}

Laird, Peter W. ^{[4
,5
]}

Yang, Allen S. ^{[1
]}

机构：

[1] Univ So Calif, Keck Sch Med, Norris Comprehens Canc Ctr, Jane Anne Nohl Div Hematol, Los Angeles, CA 90033 USA

[2] Univ So Calif, Keck Sch Med, Dept Prevent Med, Los Angeles, CA 90033 USA

[3] Univ So Calif, Keck Sch Med, Dept Pathol, Los Angeles, CA 90033 USA

[4] Univ So Calif, Dept Surg, Los Angeles, CA 90089 USA

[5] Univ So Calif, USC Epigenome Ctr, Dept Biochem & Mol Biol, Los Angeles, CA 90089 USA

来源：

HUMAN MOLECULAR GENETICS | 2009年 / 18卷 / 24期

关键词：

GENE-EXPRESSION; STEM; CELLS;

D O I：

10.1093/hmg/ddp445

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：4808 / 4817

页数：10

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