TY - GEN
T1 - Genome-wide DNA methylation profiling in 40 breast cancer cell lines
AU - Han, Leng
AU - Zheng, Siyuan
AU - Sun, Shuying
AU - Huang, Tim Hm
AU - Zhao, Zhongming
PY - 2010
Y1 - 2010
N2 - DNA methylation plays important roles in gene regulation and functions. Aberrant methylation, either hypomethylation or hypermethylation, has been reported to cause various diseases, especially cancers. Breast cancer ranked the fifth according to the number of cancer deaths in the world. To systematically characterize the epigenetic modification in breast cancer, we examined the genome-wide methylation profiling in 40 breast cancer cell lines. We identified a gene signature consisting of 345 differentially methylated genes, which could be used to discriminate estrogen receptor (ER)-negative and ER-positive breast cancer cell lines. This gene signature is promising for diagnosis and therapies of breast cancer. In the follow up functional analysis of this gene signature, three enriched networks could be highlighted. Interestingly, one of these networks contained estrogen receptor, implying its functional importance of ER-centric module. Finally, we examined the correlation between methylation and expression of these breast cancer cell lines. Very few genes showed significant correlation, suggesting that gene expression regulated by methylation is a complex biological process.
AB - DNA methylation plays important roles in gene regulation and functions. Aberrant methylation, either hypomethylation or hypermethylation, has been reported to cause various diseases, especially cancers. Breast cancer ranked the fifth according to the number of cancer deaths in the world. To systematically characterize the epigenetic modification in breast cancer, we examined the genome-wide methylation profiling in 40 breast cancer cell lines. We identified a gene signature consisting of 345 differentially methylated genes, which could be used to discriminate estrogen receptor (ER)-negative and ER-positive breast cancer cell lines. This gene signature is promising for diagnosis and therapies of breast cancer. In the follow up functional analysis of this gene signature, three enriched networks could be highlighted. Interestingly, one of these networks contained estrogen receptor, implying its functional importance of ER-centric module. Finally, we examined the correlation between methylation and expression of these breast cancer cell lines. Very few genes showed significant correlation, suggesting that gene expression regulated by methylation is a complex biological process.
KW - breast cancer
KW - estrogen receptor
KW - expression
KW - methylation
KW - network
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U2 - 10.1007/978-3-642-14922-1_35
DO - 10.1007/978-3-642-14922-1_35
M3 - Conference contribution
AN - SCOPUS:77958455854
SN - 3642149219
SN - 9783642149214
T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
SP - 277
EP - 284
BT - Advanced Intelligent Computing Theories and Applications - 6th International Conference on Intelligent Computing, ICIC 2010, Proceedings
T2 - 6th International Conference on Intelligent Computing, ICIC 2010
Y2 - 18 August 2010 through 21 August 2010
ER -