Analyzing the cancer methylome through targeted bisulfite sequencing

Eun Joon Lee, Junfeng Luo, James M. Wilson, Huidong Shi

Research output: Contribution to journalReview article

48 Scopus citations

Abstract

Bisulfite conversion of genomic DNA combined with next-generation sequencing (NGS) has become a very effective approach for mapping the whole-genome and sub-genome wide DNA methylation landscapes. However, whole methylome shotgun bisulfite sequencing is still expensive and not suitable for analyzing large numbers of human cancer specimens. Recent advances in the development of targeted bisulfite sequencing approaches offer several attractive alternatives. The characteristics and applications of these methods are discussed in this review article. In addition, the bioinformatic tools that can be used for sequence capture probe design as well as downstream sequence analyses are also addressed.

Original languageEnglish (US)
Pages (from-to)171-178
Number of pages8
JournalCancer Letters
Volume340
Issue number2
DOIs
StatePublished - Nov 1 2013

Keywords

  • DNA methylation
  • Next-generation sequencing
  • Targeted bisulfite sequencing

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

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