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dc.contributor.authorLi, Catherine ( )
dc.contributor.authorLee, Juyon ( )
dc.contributor.authorDing, Jessica ( )
dc.contributor.authorSun, Shuying ( Orcid Icon 0000-0003-3974-6996 )
dc.identifier.citationLi, C., Lee, J., Ding, J., & Sun, S. (2018). Integrative analysis of gene expression and methylation data for breast cancer cell lines. BioData Mining, 11(13).en_US

Background: The deadly costs of cancer and necessity for an accurate method of early cancer detection have demanded the identification of genetic and epigenetic factors associated with cancer. DNA methylation, an epigenetic event, plays an important role in cancer susceptibility. In this paper, we use DNA methylation and gene expression data integration and pathway analysis to further explore and understand the complex relationship between methylation and gene expression.

Results: Through linear modeling and analysis of variance, we obtain genes that show a significant correlation between methylation and gene expression. We then examine the functions and relationships of these genes using bioinformatic tools and databases. In particular, using ConsensusPathDB, we analyze the networks of statistically significant genes to identify hub genes, genes with a large number of links to other genes. We identify eight major hub genes, all in strong association with cancer susceptibility. Through further analysis of the function, gene expression level, and methylation level of these hub genes, we conclude that they are novel potential biomarkers for breast cancer.

Conclusions: Our findings have various implications for cancer screening, early detection methods, and potential novel treatments for cancer. Researchers can also use our results to develop more effective methods for cancer study.

dc.format.extent16 pages
dc.format.medium1 file (.pdf)
dc.publisherBioMed Central Ltd.en_US
dc.sourceBioData Mining, 2018, Vol. 11, No. 13.
dc.subjectBreast canceren_US
dc.subjectData integration
dc.subjectDNA methylation
dc.subjectGene expression
dc.subjectPathway analysis
dc.titleIntegrative Analysis of Gene Expression and Methylation Data for Breast Cancer Cell Linesen_US
dc.rights.licenseThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (, which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.



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