Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters
Diverse somatic mutations have been reported to serve as cancer drivers. Recently, it has also been reported that epigenetic regulation is closely related to cancer development. However, the effect of epigenetic changes on cancer is still elusive. In this study, we analyzed DNA methylation data on c...
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| Format: | Article |
| Language: | English |
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BioMed Central
2016-06-01
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| Series: | Genomics & Informatics |
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| Online Access: | http://genominfo.org/upload/pdf/gni-14-46.pdf |
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| author | Wonyoung Choi Jungwoo Lee Jin-Young Lee Sun-Min Lee Da-Won Kim Young-Joon Kim |
| author_facet | Wonyoung Choi Jungwoo Lee Jin-Young Lee Sun-Min Lee Da-Won Kim Young-Joon Kim |
| author_sort | Wonyoung Choi |
| collection | DOAJ |
| description | Diverse somatic mutations have been reported to serve as cancer drivers. Recently, it has also been reported that epigenetic regulation is closely related to cancer development. However, the effect of epigenetic changes on cancer is still elusive. In this study, we analyzed DNA methylation data on colon cancer taken from The Caner Genome Atlas. We found that several promoters were significantly hypermethylated in colon cancer patients. Through clustering analysis of differentially methylated DNA regions, we were able to define subgroups of patients and observed clinical features associated with each subgroup. In addition, we analyzed the functional ontology of aberrantly methylated genes and identified the G-protein-coupled receptor signaling pathway as one of the major pathways affected epigenetically. In conclusion, our analysis shows the possibility of characterizing the clinical features of colon cancer subgroups based on DNA methylation patterns and provides lists of important genes and pathways possibly involved in colon cancer development. |
| format | Article |
| id | doaj-art-d6b46a6b42314a1fa6df28c8bc1d8daf |
| institution | Kabale University |
| issn | 1598-866X 2234-0742 |
| language | English |
| publishDate | 2016-06-01 |
| publisher | BioMed Central |
| record_format | Article |
| series | Genomics & Informatics |
| spelling | doaj-art-d6b46a6b42314a1fa6df28c8bc1d8daf2025-02-02T00:40:23ZengBioMed CentralGenomics & Informatics1598-866X2234-07422016-06-01142465210.5808/GI.2016.14.2.46191Classification of Colon Cancer Patients Based on the Methylation Patterns of PromotersWonyoung Choi0Jungwoo Lee1Jin-Young Lee2Sun-Min Lee3Da-Won Kim4Young-Joon Kim5Department of Integrated OMICS for Biomedical Science, Graduate School, Yonsei University, Seoul 03722, Korea.Department of Integrated OMICS for Biomedical Science, Graduate School, Yonsei University, Seoul 03722, Korea.Department of Biochemistry, College of Life Science & Biotechnology, Yonsei University, Seoul 03722, Korea.Department of Biochemistry, College of Life Science & Biotechnology, Yonsei University, Seoul 03722, Korea.Department of Integrated OMICS for Biomedical Science, Graduate School, Yonsei University, Seoul 03722, Korea.Department of Integrated OMICS for Biomedical Science, Graduate School, Yonsei University, Seoul 03722, Korea.Diverse somatic mutations have been reported to serve as cancer drivers. Recently, it has also been reported that epigenetic regulation is closely related to cancer development. However, the effect of epigenetic changes on cancer is still elusive. In this study, we analyzed DNA methylation data on colon cancer taken from The Caner Genome Atlas. We found that several promoters were significantly hypermethylated in colon cancer patients. Through clustering analysis of differentially methylated DNA regions, we were able to define subgroups of patients and observed clinical features associated with each subgroup. In addition, we analyzed the functional ontology of aberrantly methylated genes and identified the G-protein-coupled receptor signaling pathway as one of the major pathways affected epigenetically. In conclusion, our analysis shows the possibility of characterizing the clinical features of colon cancer subgroups based on DNA methylation patterns and provides lists of important genes and pathways possibly involved in colon cancer development.http://genominfo.org/upload/pdf/gni-14-46.pdfcolon neoplasmCpG islandsDNA methylationepigenomics |
| spellingShingle | Wonyoung Choi Jungwoo Lee Jin-Young Lee Sun-Min Lee Da-Won Kim Young-Joon Kim Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters Genomics & Informatics colon neoplasm CpG islands DNA methylation epigenomics |
| title | Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters |
| title_full | Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters |
| title_fullStr | Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters |
| title_full_unstemmed | Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters |
| title_short | Classification of Colon Cancer Patients Based on the Methylation Patterns of Promoters |
| title_sort | classification of colon cancer patients based on the methylation patterns of promoters |
| topic | colon neoplasm CpG islands DNA methylation epigenomics |
| url | http://genominfo.org/upload/pdf/gni-14-46.pdf |
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