An improved method for genome wide dna methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines
文献类型：期刊论文
| 作者 | Li, Jian1,7; Gao, Fei1,2,3,4; Li, Ning2,3; Li, Shengting1; Yin, Guangliang3; Tian, Geng2,3; Jia, Shangang2,3; Wang, Kai1,5,7; Zhang, Xiuqing2,3; Yang, Huanming6 |
| 刊名 | Bmc genomics
 |
| 出版日期 | 2009-05-13 |
| 卷号 | 10页码:15 |
| ISSN号 | 1471-2164 |
| DOI | 10.1186/1471-2164-10-223 |
| 通讯作者 | Li, jian(jianl@humgen.au.dk) |
| 英文摘要 | Background: dna methylation is a widely studied epigenetic mechanism known to correlate with gene repression and genomic stability. development of sensitive methods for global detection of dna methylation events is of particular importance. results: we here describe a technique, called modified methylation-specific digital karyotyping (mmsdk) based on methylation-specific digital karyotyping (msdk) with a novel sequencing approach. briefly, after a tandem digestion of genomic dna with a methylation-sensitive mapping enzyme and a fragmenting enzyme, short sequence tags are obtained. these tags are amplified, followed by direct, massively parallel sequencing (solexa 1g genome analyzer). this method allows high-throughput and low-cost genome-wide dna methylation mapping. we applied this method to investigate global dna methylation profiles for widely used breast cancer cell lines, mcf-7 and mda-mb-231, which are representatives for luminal-like and mesenchymal-like cancer types, respectively. by comparison, a highly similar overall dna methylation pattern was revealed for the two cell lines. however a cohort of individual genomic loci with significantly different dna methylation status between two cell lines was identified. furthermore, we revealed a genome-wide significant correlation between gene expression and the methylation status of gene promoters with cpg islands (cgis) in the two cancer cell lines, and a correlation of gene expression and the methylation status of promoters without cgis in mcf-7 cells. conclusion: the mmsdk method will be a valuable tool to increase the current knowledge of genome wide dna methylation profiles. |
| WOS关键词 | GENE-EXPRESSION ; HYPOMETHYLATION ; TUMORS ; HYBRIDIZATION ; CARCINOMAS ; SUBCLASSES ; SITES |
| WOS研究方向 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| WOS类目 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:000267735100001 |
| 出版者 | BIOMED CENTRAL LTD |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2399447 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Li, Jian |
| 作者单位 | 1.Univ Aarhus, Inst Human Genet, DK-8000 Aarhus C, Denmark 2.Chinese Acad Sci, Beijing Inst Genom, Beijing 101300, Peoples R China 3.Beijing Genom Inst, Shenzhen 518083, Guangdong, Peoples R China 4.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China 5.Univ Aarhus, BiRC, DK-8000 Aarhus, Denmark 6.Beijing Genom Inst, Beijing 101300, Peoples R China 7.Danish Ctr Translat Breast Canc Res DCTB, DK-2100 Copenhagen, Denmark |
| 推荐引用方式 GB/T 7714 | Li, Jian,Gao, Fei,Li, Ning,et al. An improved method for genome wide dna methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines[J]. Bmc genomics,2009,10:15. |
| APA | Li, Jian.,Gao, Fei.,Li, Ning.,Li, Shengting.,Yin, Guangliang.,...&Bolund, Lars.(2009).An improved method for genome wide dna methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines.Bmc genomics,10,15. |
| MLA | Li, Jian,et al."An improved method for genome wide dna methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines".Bmc genomics 10(2009):15. |
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来源：中国科学院大学
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