Genome-wide methylated CpG island profiles of melanoma cells reveal a melanoma coregulation network

Li, Jian-Liang, Mazar, Joseph, Zhong, Cuncong, Faulkner, Geoffrey J., Govindarajan, Subramaniam S., Zhang, Zhan, Dinger, Marcel E., Meredith, Gavin, Adams, Christopher, Zhang, Shaojie, Mattick, John S., Ray, Animesh and Perera, Ranjan J. (2013) Genome-wide methylated CpG island profiles of melanoma cells reveal a melanoma coregulation network. Scientific Reports, 3 02962.1-02962.12. doi:10.1038/srep02962


Author Li, Jian-Liang
Mazar, Joseph
Zhong, Cuncong
Faulkner, Geoffrey J.
Govindarajan, Subramaniam S.
Zhang, Zhan
Dinger, Marcel E.
Meredith, Gavin
Adams, Christopher
Zhang, Shaojie
Mattick, John S.
Ray, Animesh
Perera, Ranjan J.
Title Genome-wide methylated CpG island profiles of melanoma cells reveal a melanoma coregulation network
Journal name Scientific Reports   Check publisher's open access policy
ISSN 2045-2322
Publication date 2013-10-01
Year available 2013
Sub-type Article (original research)
DOI 10.1038/srep02962
Open Access Status DOI
Volume 3
Start page 02962.1
End page 02962.12
Total pages 12
Place of publication London, United Kingdom
Publisher Nature Publishing Group
Collection year 2014
Language eng
Formatted abstract
Metastatic melanoma is a malignant cancer with generally poor prognosis, with no targeted chemotherapy. To identify epigenetic changes related to melanoma, we have determined genome-wide methylated CpG island distributions by next-generation sequencing. Melanoma chromosomes tend to be differentially methylated over short CpG island tracts. CpG islands in the upstream regulatory regions of many coding and noncoding RNA genes, including, for example, TERC, which encodes the telomerase RNA, exhibit extensive hypermethylation, whereas several repeated elements, such as LINE 2, and several LTR elements, are hypomethylated in advanced stage melanoma cell lines. By using CpG island demethylation profiles, and by integrating these data with RNA-seq data obtained from melanoma cells, we have identified a co-expression network of differentially methylated genes with significance for cancer related functions. Focused assays of melanoma patient tissue samples for CpG island methylation near the noncoding RNA gene SNORD-10 demonstrated high specificity.
Keyword Human cancer-cells
Malignant-melanoma
DNA methylation
Tumor suppressors
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2014 Collection
School of Biomedical Sciences Publications
 
Versions
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 8 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 9 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Sun, 10 Nov 2013, 10:24:15 EST by System User on behalf of School of Biomedical Sciences