Global DNA Methylation Profiling Technologies and the Ovarian Cancer Methylome

DNA甲基化 表观遗传学 计算生物学 亚硫酸氢盐测序 照明菌甲基化试验 生物 甲基化DNA免疫沉淀 甲基化 DNA测序 基因组 遗传学 DNA 基因 基因表达
作者
Jessica A. Tang,Fang Fang,Dave P. Miller,Jay Pilrose,Daniela Matei,Tim H M Huang,Kenneth P. Nephew
出处
期刊:Methods in molecular biology 卷期号:: 653-675 被引量:21
标识
DOI:10.1007/978-1-4939-1804-1_34
摘要

AbstractCytosine methylation in DNA constitutes an important epigenetic layer of transcriptional and regulatory control in many eukaryotes. Profiling DNA methylation across the genome is critical to understanding the influence of epigenetics in normal biology and disease, such as cancer. Genome-wide analyses such as arrays and next-generation sequencing (NGS) technologies have been used to assess large fractions of the methylome at a single-base-pair resolution. However, the range of DNA methylation profiling techniques can make selecting the appropriate protocol a challenge. This chapter discusses the advantages and disadvantages of various methylome detection approaches to assess which is appropriate for the question at hand. Here, we focus on four prominent genome-wide approaches: whole-genome bisulfite sequencing (WGBS); methyl-binding domain capture sequencing (MBDCap-Seq); reduced-representation-bisulfite-sequencing (RRBS); and Infinium Methylation450 BeadChips (450 K, Illumina). We discuss some of the requirements, merits, and challenges that should be considered when choosing a methylome technology to ensure that it will be informative. In addition, we show how genome-wide methylation detection arrays and high-throughput sequencing have provided immense insight into ovarian cancer-specific methylation signatures that may serve as diagnostic biomarkers or predict patient response to epigenetic therapy.Key wordsEpigeneticsMethylationNext-generation sequencingOvarian cancerWhole-genome bisulfite sequencing
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