Sequencing the cancer methylome.
Sequencing the cancer methylome.
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DOI：
10.1007/978-1-4939-1804-1_33
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发表时间：
2015
影响因子：
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通讯作者：
Austin Shull;S. Noonepalle;Eun-Joon Lee;Jeong-Hyeon Choi;Huidong Shi
中科院分区：
文献类型：
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作者：
Austin Shull;S. Noonepalle;Eun-Joon Lee;Jeong-Hyeon Choi;Huidong Shi
DNA甲基化是癌症中研究最多的表观遗传事件，重点是研究特定癌症中的整个DNA甲基化景观。由于新一代测序技术的进步，已经开发出几种有效的高通量DNA甲基化分析方法，使DNA甲基化标记成为癌症诊断和治疗的创新策略。在这篇综述中，我们讨论了当前和新兴的DNA甲基化分析技术，这些技术将下一代测序与甲基化检测的基本原理结合起来，包括甲基化敏感的限制性内切酶酶切、抗体或结合蛋白的亲和纯化以及亚硫酸氢盐处理。这些方法的变化也允许在全基因组范围内检测5-羟甲基胞嘧啶标记。我们还描述了几种用于正确分析甲基组测序数据的生物信息学工具。最后，最近开发的人工转录因子（ATF）靶向工具可以灵活地操纵特定基因区域的DNA甲基化事件，揭示特定DNA甲基化事件的功能后果。
DNA methylation is the most studied epigenetic event in cancer, with focus being placed on studying the entire DNA methylation landscape in specific cancers. Due to the recent advances of next-generation sequencing technology, several effective methods have been developed for high-throughput analysis of DNA methylation, enabling DNA methylation markers to be innovative diagnostic and therapeutic strategies in cancer. In this review, we discuss various current and emerging technologies in DNA methylation analysis that integrate next-generation sequencing with the basic principles of methylation detections including methylation sensitive restriction enzyme digestion, affinity purification with antibody or binding proteins, and bisulfite treatment. Variations to these described methods have also allowed for detection of 5-hydroxymethylcytosine marks on a genome-wide scale. We also describe several of the bioinformatic tools used to properly analyze methylome-sequencing data. Finally, recently developed artificial transcription-factor (ATF) targeting tools may provide flexible manipulation of DNA methylation events in specific gene regions, revealing the functional consequences of particular DNA methylation events.