Identification of as a Hypermethylated Gene in Colorectal Cancers
Aberrant DNA methylation, as an epigenetic marker of cancer, influences tumor development and progression. We downloaded publicly available DNA methylation and gene expression datasets of matched cancer and normal pairs from the Cancer Genome Atlas Data Portal and performed a systematic computationa...
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| Format: | Article |
| Language: | English |
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BioMed Central
2014-12-01
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| Series: | Genomics & Informatics |
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| Online Access: | http://genominfo.org/upload/pdf/gni-12-171.pdf |
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| author | Jongbum Kim Sangsoo Kim |
| author_facet | Jongbum Kim Sangsoo Kim |
| author_sort | Jongbum Kim |
| collection | DOAJ |
| description | Aberrant DNA methylation, as an epigenetic marker of cancer, influences tumor development and progression. We downloaded publicly available DNA methylation and gene expression datasets of matched cancer and normal pairs from the Cancer Genome Atlas Data Portal and performed a systematic computational analysis. This study has three aims to screen genes that show hypermethylation and downregulated patterns in colorectal cancers, to identify differentially methylated regions in one of these genes, SFRP1, and to test whether the SFRP genes affect survival or not. Our results show that 31 hypermethylated genes had a negative correlation with gene expression. Among them, SFRP1 had a differentially methylated pattern at each methylation site. We also show that SFRP1 may be a potential biomarker for colorectal cancer survival. |
| format | Article |
| id | doaj-art-bc79339216674997aa2600adfb5672a2 |
| institution | Kabale University |
| issn | 1598-866X 2234-0742 |
| language | English |
| publishDate | 2014-12-01 |
| publisher | BioMed Central |
| record_format | Article |
| series | Genomics & Informatics |
| spelling | doaj-art-bc79339216674997aa2600adfb5672a22025-02-02T20:41:58ZengBioMed CentralGenomics & Informatics1598-866X2234-07422014-12-0112417118010.5808/GI.2014.12.4.171103Identification of as a Hypermethylated Gene in Colorectal CancersJongbum Kim0Sangsoo Kim1Department of Bioinformatics and Life Science, Soongsil University, Seoul 156-743, Korea.Department of Bioinformatics and Life Science, Soongsil University, Seoul 156-743, Korea.Aberrant DNA methylation, as an epigenetic marker of cancer, influences tumor development and progression. We downloaded publicly available DNA methylation and gene expression datasets of matched cancer and normal pairs from the Cancer Genome Atlas Data Portal and performed a systematic computational analysis. This study has three aims to screen genes that show hypermethylation and downregulated patterns in colorectal cancers, to identify differentially methylated regions in one of these genes, SFRP1, and to test whether the SFRP genes affect survival or not. Our results show that 31 hypermethylated genes had a negative correlation with gene expression. Among them, SFRP1 had a differentially methylated pattern at each methylation site. We also show that SFRP1 may be a potential biomarker for colorectal cancer survival.http://genominfo.org/upload/pdf/gni-12-171.pdfcolorectal cancerDNA Methylationfrizzled related protein-1survival analysis |
| spellingShingle | Jongbum Kim Sangsoo Kim Identification of as a Hypermethylated Gene in Colorectal Cancers Genomics & Informatics colorectal cancer DNA Methylation frizzled related protein-1 survival analysis |
| title | Identification of as a Hypermethylated Gene in Colorectal Cancers |
| title_full | Identification of as a Hypermethylated Gene in Colorectal Cancers |
| title_fullStr | Identification of as a Hypermethylated Gene in Colorectal Cancers |
| title_full_unstemmed | Identification of as a Hypermethylated Gene in Colorectal Cancers |
| title_short | Identification of as a Hypermethylated Gene in Colorectal Cancers |
| title_sort | identification of as a hypermethylated gene in colorectal cancers |
| topic | colorectal cancer DNA Methylation frizzled related protein-1 survival analysis |
| url | http://genominfo.org/upload/pdf/gni-12-171.pdf |
| work_keys_str_mv | AT jongbumkim identificationofasahypermethylatedgeneincolorectalcancers AT sangsookim identificationofasahypermethylatedgeneincolorectalcancers |