The DNA methylome of human peripheral blood mononuclear cells

Yingrui Li; Jingde Zhu; Geng Tian; Ning Li; Qibin Li; Mingzhi Ye; Hancheng Zheng; Jian Yu; Honglong Wu; Jihua Sun; Hongyu Zhang; Quan Chen; Ruibang Luo; Minfeng Chen; Yinghua He; Xin Jin; Qinghui Zhang; Chang Yu; Guangyu Zhou; Jinfeng Sun; Yebo Huang; Huisong Zheng; Hongzhi Cao; Xiaoyu Zhou; Shicheng Guo; Xueda Hu; Xin Li; Karsten Kristiansen; Lars Bolund; Jiujin Xu; Wen Wang; Huanming Yang; Jian Wang; Ruiqiang Li; Stephan Beck; Jun Wang; Xiuqing Zhang

doi:10.1371/journal.pbio.1000533

The DNA methylome of human peripheral blood mononuclear cells

Yingrui Li, Jingde Zhu, Geng Tian, Ning Li, Qibin Li, Mingzhi Ye, Hancheng Zheng, Jian Yu, Honglong Wu, Jihua Sun, Hongyu Zhang, Quan Chen, Ruibang Luo, Minfeng Chen, Yinghua He, Xin Jin, Qinghui Zhang, Chang Yu, Guangyu Zhou, Jinfeng SunYebo Huang, Huisong Zheng, Hongzhi Cao, Xiaoyu Zhou, Shicheng Guo, Xueda Hu, Xin Li, Karsten Kristiansen, Lars Bolund, Jiujin Xu, Wen Wang, Huanming Yang, Jian Wang, Ruiqiang Li, Stephan Beck, Jun Wang, Xiuqing Zhang

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Abstract

DNA methylation plays an important role in biological processes in human health and disease. Recent technological advances allow unbiased whole-genome DNA methylation (methylome) analysis to be carried out on human cells. Using whole-genome bisulfite sequencing at 24.7-fold coverage (12.3-fold per strand), we report a comprehensive (92.62%) methylome and analysis of the unique sequences in human peripheral blood mononuclear cells (PBMC) from the same Asian individual whose genome was deciphered in the YH project. PBMC constitute an important source for clinical blood tests world-wide. We found that 68.4% of CpG sites and 80% displayed allele-specific expression (ASE). These data demonstrate that ASM is a recurrent phenomenon and is highly correlated with ASE in human PBMCs. Together with recently reported similar studies, our study provides a comprehensive resource for future epigenomic research and confirms new sequencing technology as a paradigm for large-scale epigenomics studies.

Original language	English
Journal	PLoS - Biology
Volume	8
Issue number	11
Pages (from-to)	e1000533-e1000533
ISSN	1544-9173
DOIs	https://doi.org/10.1371/journal.pbio.1000533
Publication status	Published - Nov 2010

Keywords

Alleles
CpG Islands
DNA Methylation
Haploidy
Humans
Leukocytes, Mononuclear
RNA, Untranslated
Sequence Alignment

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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Li, Y, Zhu, J, Tian, G, Li, N, Li, Q, Ye, M, Zheng, H, Yu, J, Wu, H, Sun, J, Zhang, H, Chen, Q, Luo, R, Chen, M, He, Y, Jin, X, Zhang, Q, Yu, C, Zhou, G, Sun, J, Huang, Y, Zheng, H, Cao, H, Zhou, X, Guo, S, Hu, X, Li, X, Kristiansen, K, Bolund, L, Xu, J, Wang, W, Yang, H, Wang, J, Li, R, Beck, S, Wang, J & Zhang, X 2010, 'The DNA methylome of human peripheral blood mononuclear cells', PLoS - Biology, vol. 8, no. 11, pp. e1000533-e1000533. https://doi.org/10.1371/journal.pbio.1000533

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AU - Ye, Mingzhi

AU - Zheng, Hancheng

AU - Yu, Jian

AU - Wu, Honglong

AU - Sun, Jihua

AU - Zhang, Hongyu

AU - Chen, Quan

AU - Luo, Ruibang

AU - Chen, Minfeng

AU - He, Yinghua

AU - Jin, Xin

AU - Zhang, Qinghui

AU - Yu, Chang

AU - Zhou, Guangyu

AU - Sun, Jinfeng

AU - Huang, Yebo

AU - Zheng, Huisong

AU - Cao, Hongzhi

AU - Zhou, Xiaoyu

AU - Guo, Shicheng

AU - Hu, Xueda

AU - Li, Xin

AU - Kristiansen, Karsten

AU - Bolund, Lars

AU - Xu, Jiujin

AU - Wang, Wen

AU - Yang, Huanming

AU - Wang, Jian

AU - Li, Ruiqiang

AU - Beck, Stephan

AU - Wang, Jun

AU - Zhang, Xiuqing

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N2 - DNA methylation plays an important role in biological processes in human health and disease. Recent technological advances allow unbiased whole-genome DNA methylation (methylome) analysis to be carried out on human cells. Using whole-genome bisulfite sequencing at 24.7-fold coverage (12.3-fold per strand), we report a comprehensive (92.62%) methylome and analysis of the unique sequences in human peripheral blood mononuclear cells (PBMC) from the same Asian individual whose genome was deciphered in the YH project. PBMC constitute an important source for clinical blood tests world-wide. We found that 68.4% of CpG sites and 80% displayed allele-specific expression (ASE). These data demonstrate that ASM is a recurrent phenomenon and is highly correlated with ASE in human PBMCs. Together with recently reported similar studies, our study provides a comprehensive resource for future epigenomic research and confirms new sequencing technology as a paradigm for large-scale epigenomics studies.

AB - DNA methylation plays an important role in biological processes in human health and disease. Recent technological advances allow unbiased whole-genome DNA methylation (methylome) analysis to be carried out on human cells. Using whole-genome bisulfite sequencing at 24.7-fold coverage (12.3-fold per strand), we report a comprehensive (92.62%) methylome and analysis of the unique sequences in human peripheral blood mononuclear cells (PBMC) from the same Asian individual whose genome was deciphered in the YH project. PBMC constitute an important source for clinical blood tests world-wide. We found that 68.4% of CpG sites and 80% displayed allele-specific expression (ASE). These data demonstrate that ASM is a recurrent phenomenon and is highly correlated with ASE in human PBMCs. Together with recently reported similar studies, our study provides a comprehensive resource for future epigenomic research and confirms new sequencing technology as a paradigm for large-scale epigenomics studies.

KW - Alleles

KW - CpG Islands

KW - DNA Methylation

KW - Haploidy

KW - Humans

KW - Leukocytes, Mononuclear

KW - RNA, Untranslated

KW - Sequence Alignment

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DO - 10.1371/journal.pbio.1000533

M3 - Journal article

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SP - e1000533-e1000533

JO - PLoS - Biology

JF - PLoS - Biology

IS - 11

ER -

The DNA methylome of human peripheral blood mononuclear cells

Abstract

Keywords

UN SDGs

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