Clustering of Cancer Cell Lines Using A Promoter- Targeted Liquid Hybridization Capture-Based Bisulfite Sequencing Approach.
DNA methylation plays a significant role in assuring cell identity, thus potentiating its application in molecular classification of cancers in respect to tissue-origins or clinically and etiologically distinct subtypes. In this study, we optimized our liquid hybridization capture-based bisulfite sequencing (LHC-BS) approach on the gene promoter regions of 11 cell lines. Our results indicated that promoter methylomes could not only cluster cancer cell lines with respect to tissue origins but also differentiate cancer subtypes based on CpG island methylator phenotype (CIMP). Promoter-targeted LHC-BS as means for comprehensive screening and classifying cancer cells with promoter methylomes provided a powerful strategy for further complex clinical studies.
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China These authors contributed equally to this work. flys828@gmail.com.
Fei
F
Gao
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China These authors contributed equally to this work.
Junwen
J
Wang
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China These authors contributed equally to this work.
Guanyu
G
Ji
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Siyang
S
Liu
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Yu
Y
Yao
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Tong
T
Wang
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Honglong
H
Wu
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Yudong
Y
Xia
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Desheng
D
Gong
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China.
Hui
H
Jiang
Science & Technology Department, BGI-Shenzhen, Shenzhen 518083, China King Abdulaziz University, Jeddah, Saudi Arabia James D. Watson Institute of Genome Science, Hangzhou, China.
Huanming
H
Yang
The Guangdong Enterprise Key Laboratory of Human Disease Genomics, BGI-Shenzhen, Shenzhen, China.
Xiuqing
X
Zhang
D045744:Cell Line, Tumor; D016000:Cluster Analysis; D019175:DNA Methylation; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D009369:Neoplasms / Q000235:genetics*; D009693:Nucleic Acid Hybridization; D011401:Promoter Regions, Genetic; D017422:Sequence Analysis, DNA
CIMP; Cancer classification; DNA methylation; Promoter; Targeted bisulfite sequencing