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Robust prediction of gene regulation in colorectal cancer tissues from DNA methylation profiles
| Content Provider | Semantic Scholar |
|---|---|
| Author | Klett, Hagen Balavarca, Yesilda Tóth, Réka Ibolya Gigic, Biljana Habermann, Nina Rer. Nat. Scherer, Daniela Raffo Schrotz-King, Petra Ulrich, Alexis B. Schirmacher, Peter Herpel, Esther Brenner, Hermann Ulrich, Cornelia M. Michels, Karin B. Busch, Hauke Boerries, Melanie |
| Copyright Year | 2018 |
| Abstract | DNA methylation is recognized as one of several epigenetic regulators of gene expression and as potential driver of carcinogenesis through gene-silencing of tumor suppressors and activation of oncogenes. However, abnormal methylation, even of promoter regions, does not necessarily alter gene expression levels, especially if the gene is already silenced, leaving the exact mechanisms of methylation unanswered. Using a large cohort of matching DNA methylation and gene expression samples of colorectal cancer (CRC; n = 77) and normal adjacent mucosa tissues (n = 108), we investigated the regulatory role of methylation on gene expression. We show that on a subset of genes enriched in common cancer pathways, methylation is significantly associated with gene regulation through gene-specific mechanisms. We built two classification models to infer gene regulation in CRC from methylation differences of tumor and normal tissues, taking into account both gene-silencing and gene-activation effects through hyper- and hypo-methylation of CpGs. The classification models result in high prediction performances in both training and independent CRC testing cohorts (0.92 |
| Starting Page | 386 |
| Ending Page | 397 |
| Page Count | 12 |
| File Format | PDF HTM / HTML |
| PubMed reference number | 29697014v1 |
| Alternate Webpage(s) | https://doi.org/10.1080/15592294.2018.1460034 |
| DOI | 10.1080/15592294.2018.1460034 |
| Journal | Epigenetics |
| Volume Number | 13 |
| Language | English |
| Access Restriction | Open |
| Subject Keyword | Body tissue Carcinogenesis Colorectal Carcinoma Departure - action Gene Expression Regulation HMGA1b Protein Hyperactive behavior Inference Methylation Neoplasms Non-Small Cell Lung Carcinoma Oncogenes Promoter Regions, Genetic Subgroup Tumor Suppressor Genes cellular targeting study of epigenetics |
| Content Type | Text |
| Resource Type | Article |
