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DNA Methylation Analysis

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Nanotoxicity

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1894))

Abstract

DNA methylation is a process by which methyl groups are added to cytosine or adenine. DNA methylation can change the activity of the DNA molecule without changing the sequence. Methylation of 5-methylcytosine (5mC) is widespread in both eukaryotes and prokaryotes, and it is a very important epigenetic modification event, which can regulate gene activity and influence a number of key processes such as genomic imprinting, cell differentiation, transcriptional regulation, and chromatin remodeling. Profiling DNA methylation across the genome is critical to understanding the influence of methylation in normal biology and diseases including cancer. Recent discoveries of 5-methylcytosine (5mC) oxidation derivatives including 5-hydroxymethylcytosine (5hmC), 5-formylcytsine (5fC), and 5-carboxycytosine (5caC) in mammalian genome further expand our understanding of the methylation regulation. Genome-wide analyses such as microarrays and next-generation sequencing technologies have been used to assess large fractions of the methylome. A number of different quantitative approaches have also been established to map the DNA epigenomes with single-base resolution, as represented by the bisulfite-based methods, such as classical bisulfite sequencing, pyrosequencing etc. These methods have been used to generate base-resolution maps of 5mC and its oxidation derivatives in genomic samples. The focus of this chapter is to provide the methodologies that have been developed to detect the cytosine derivatives in the genomic DNA.

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Acknowledgment

This work was supported by grants from the National Natural Science Foundation of China (No. 81472960, 81001242, 81502794), Zhejiang Province Natural Science Foundation of China (Y13H260011), Zhejiang Provincial Program for the Cultivation of High-level Innovative Health talents (2014), and Zhejiang Medical Health Science and Technology Foundation (2015RCA007).

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Authors and Affiliations

  1. Institute of Occupational Diseases, Zhejiang Academy of Medical Sciences, Hangzhou, P. R. China

    Lingfang Feng & Jianlin Lou

Authors
  1. Lingfang Feng
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  2. Jianlin Lou
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Editors and Affiliations

  1. Department of Environmental and Occupational Health Sciences, School of Public Health and Information Sciences, University of Louisville, Louisville, KY, USA

    Qunwei Zhang

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Feng, L., Lou, J. (2019). DNA Methylation Analysis. In: Zhang, Q. (eds) Nanotoxicity. Methods in Molecular Biology, vol 1894. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-8916-4_12

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  • DOI: https://doi.org/10.1007/978-1-4939-8916-4_12

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-8915-7

  • Online ISBN: 978-1-4939-8916-4

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