DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands
| Autor: | Karolina Tandre, Per Wahlberg, Anders Lundmark, Daniel Sinnett, Tomi Pastinen, Stephan Busche, Lars Rönnblom, Erik Forestier, Ann-Christine Syvänen, Gudmar Lönnerholm, Jessica Nordlund, Amanda Raine |
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| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
Male
0301 basic medicine Cancer Research Bisulfite sequencing epigenome acute lymphoblastic leukemia Biology methylome 03 medical and health sciences chemistry.chemical_compound CpG islands Genetics Humans Methylated DNA immunoprecipitation Child Medicinsk genetik DNA methylation Gene Expression Profiling Infant Epigenome DNA Methylation Precursor Cell Lymphoblastic Leukemia-Lymphoma Molecular biology Gene Expression Regulation Neoplastic Bisulfite 030104 developmental biology CpG site chemistry Child Preschool Cancer research Illumina Methylation Assay CpG Islands Female Medical Genetics DNA whole-genome bisulfite sequencing |
| Popis: | Aim: To identify regions of aberrant DNA methylation in acute lymphoblastic leukemia (ALL) cells of different subtypes on a genome-wide scale. Materials & methods: Whole-genome bisulfite sequencing (WGBS) was used to determine the DNA methylation levels in cells from four pediatric ALL patients of different subtypes. The findings were confirmed by 450k DNA methylation arrays in a large patient set. Results: Compared with mature B or T cells WGBS detected on average 82,000 differentially methylated regions per patient. Differentially methylated regions are enriched to CpG poor regions, active enhancers and transcriptional start sites. We also identified approximately 8000 CpG islands with variable intermediate DNA methylation that seems to occur as a result of stochastic de novo methylation. Conclusion: WGBS provides an unbiased view and novel insights into the DNA methylome of ALL cells. |
| Databáze: | OpenAIRE |
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