title: Analyzing the cancer methylome through targeted bisulfite sequencing.
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.
authors.affiliation: GHSU Cancer Center, Department of Biochemistry and Molecular Biology, Georgia Health Sciences University, Augusta, GA 30912, USA.
authors.forename: Eun-Joon
authors.initials: EJ
authors.lastname: Lee
authors.forename: Junfeng
authors.initials: J
authors.lastname: Luo
authors.forename: James M
authors.initials: JM
authors.lastname: Wilson
authors.forename: Huidong
authors.initials: H
authors.lastname: Shi
mesh_terms: D000818:Animals; D014408:Biomarkers, Tumor / Q000235:genetics*; D019295:Computational Biology; D019175:DNA Methylation; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D020022:Genetic Predisposition to Disease; D005820:Genetic Testing; D015894:Genome, Human; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D009369:Neoplasms / Q000175:diagnosis / Q000235:genetics* / Q000628:therapy; D010641:Phenotype; D016133:Polymerase Chain Reaction; D057285:Precision Medicine; D011237:Predictive Value of Tests; D011379:Prognosis; D017422:Sequence Analysis, DNA; D013447:Sulfites / Q000737:chemistry*
chemical_list: D014408:Biomarkers, Tumor; D013447:Sulfites; C042345:hydrogen sulfite