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- Title
Identification of Genes with Consistent Methylation Levels across Different Human Tissues.
- Authors
Lu, Tzu-Pin; Chen, Kevin T.; Tsai, Mong-Hsun; Kuo, Kuan-Ting; Hsiao, Chuhsing Kate; Lai, Liang-Chuan; Chuang, Eric Y.
- Abstract
DNA methylation plays an important role in regulating cell growth and disease development. Methylation profiles are examined by bisulfite conversion; however, the lack of markers for bisulfite conversion efficiency and appropriate internal control genes remains a major challenge. To address these issues, we utilized two bioinformatics approaches, coefficients of variances and resampling tests, to identify probes showing stable methylation levels from several independent microarray datasets. Mass spectrometry validated the consistently high methylation levels of the five probes (N4BP2, EGFL8, CTRB1, TSPAN3, and ZNF690) in 13 human tissue types from 24 cell lines. Linear associations between detected methylation levels and methyl concentrations of DNAsamples were further demonstrated in three genes (N4BP2,EGFL8, andCTRB1). To summarize, we identified five genes which may serve as internal controls for methylation studies by analyzing large-scale microarray data, and three of them can be used as markers for evaluating the efficiency of bisulfite conversion.
- Subjects
DNA methylation; TISSUES; CELL growth; BIOINFORMATICS; DNA microarrays; CELL lines
- Publication
Scientific Reports, 2014, p1
- ISSN
2045-2322
- Publication type
Article
- DOI
10.1038/srep04351