Whole genome dna methylation analysis based on high throughput sequencing technology
文献类型：期刊论文
| 作者 | Li, Ning1,2,3; Ye, Mingzhi1; Li, Yingrui1; Yan, Zhixiang1; Butcher, Lee M.5; Sun, Jihua1; Han, Xu1; Chen, Quan1; Zhang, Xiuqing1; Wang, Jun1,4 |
| 刊名 | Methods
 |
| 出版日期 | 2010-11-01 |
| 卷号 | 52期号:3页码:203-212 |
| 关键词 | Dna methylation Bisulfite-sequencing Medip-sequencing Mbd-sequencing |
| ISSN号 | 1046-2023 |
| DOI | 10.1016/j.ymeth.2010.04.009 |
| 通讯作者 | Wang, jun(wangj@genomics.org.cn) |
| 英文摘要 | There are numerous approaches to decipher a whole genome dna methylation profile ("methylome"), each varying in cost, throughput and resolution. the gold standard of these methods, whole genome bisulfite-sequencing (bs-seq), involves treatment of dna with sodium bisulfite combined with subsequent high throughput sequencing. using bs-seq, we generated a single-base-resolution methylome in human peripheral blood mononuclear cells (in press). this bs-seq map was then used as the reference methylome to compare two alternative sequencing-based methylome assays (performed on the same donor of pbmcs): methylated dna immunoprecipitation (medip-seq) and methyl-binding protein (mbd-seq). in our analysis, we found that medip-seq and mbd-seq are complementary strategies, with medip-seq more sensitive to highly methylated, high-cpg densities and mdb-seq more sensitive to highly methylated, moderate-cpg densities. taking into account the size of a mammalian genome and the current expense of sequencing, we feel 3 gigabases (gbp) 45 bp paired-end medip-seq or mbd-seq uniquely mapped reads is the minimum requirement and cost-effective strategy for methylome pattern analysis. (c) 2010 elsevier inc. all rights reserved. |
| WOS关键词 | CANCER-CELLS ; RESOLUTION ; WIDE ; ARABIDOPSIS ; EPIGENOME ; PATTERNS |
| WOS研究方向 | Biochemistry & Molecular Biology |
| WOS类目 | Biochemical Research Methods ; Biochemistry & Molecular Biology |
| 语种 | 英语 |
| WOS记录号 | WOS:000284183700002 |
| 出版者 | ACADEMIC PRESS INC ELSEVIER SCIENCE |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2409294 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Wang, Jun |
| 作者单位 | 1.Beijing Genom Inst Shenzhen, Shenzhen 518000, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing 100062, Peoples R China 3.Chinese Acad Sci, Beijing Inst Genom, Beijing 100029, Peoples R China 4.Univ Copenhagen, Dept Biol, Copenhagen, Denmark 5.UCL, UCL Canc Inst, London WC1E 6BT, England |
| 推荐引用方式 GB/T 7714 | Li, Ning,Ye, Mingzhi,Li, Yingrui,et al. Whole genome dna methylation analysis based on high throughput sequencing technology[J]. Methods,2010,52(3):203-212. |
| APA | Li, Ning.,Ye, Mingzhi.,Li, Yingrui.,Yan, Zhixiang.,Butcher, Lee M..,...&Wang, Jun.(2010).Whole genome dna methylation analysis based on high throughput sequencing technology.Methods,52(3),203-212. |
| MLA | Li, Ning,et al."Whole genome dna methylation analysis based on high throughput sequencing technology".Methods 52.3(2010):203-212. |
入库方式： iSwitch采集
来源：中国科学院大学
浏览0
下载0
收藏0
其他版本
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。