DNA甲基化数据分析方法和软件应用

Data analysis and its analytical softs application on DNA methylation in tumor research

目的分析DNA甲基化芯片实验过程质量控制方法、数据统计分析要点及实验结果的验证和数据的可视化处理。方法利用文献、DNA甲基化实验数据探讨DNA甲基化研究中的方法学。结果 DNA甲基化芯片初筛异常过程应多在步骤质量控制工作中,包括DNA片段化、免疫共沉淀阳性对照的选择、去除原始扫描噪音信号和数据均一化处理。DNA甲基化芯片的结果可采用常用的甲基化特异性PCR(MSP)和甲基化测序PCR(BSP),引物设计软件包括Methprimer和Methyl Primer Ex-press。DNA甲基化芯片分析数据的可视软件为Signal map;BSP结果的可视化可采用Windows系统下的执行软件QUMA和BISMA。结论 DNA甲基化研究,应从多角度控制实验的设计和数据的产生及结果的分析。

Objective To analyze the quality control method,data analytic key points, results confirmation and data visualization processing during the experimental process of DNA methylation chip. Methods We used published paper and our original research data to explore the methods used in DNA methylation analysis. Result The quality control includes DNA segmentation, positive control selection, noise signal removing and data normalization. Mehtylation specific PCR（MSP） and bisulfite sequencing PCR（BSP） were needed in validation of MeDIP-Chip array results. Methprimer and Methyl Primer Express were used for primer designing. MeDIP Chip array results were visualized by signal map and BSP result could be analyzed by QUMA and BISMAConclusion In DNA methyaltion research, multifactorial quality control in MeDIP-chip, design and data analysis is necessary.