IR@PKUHSC  > 北京大学第三临床医学院  > 心血管内科
学科主题临床医学
The comparison of different normalization methods in microarray data
Tan Xiao-Jun; Zhang Yong-Xin; Qian Min-Ping; Zhang You-Yi; Deng Ming-Hua
关键词microarray normalization correlation coefficient
刊名PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS
2007
34期:6页:625-633
收录类别SCI
文章类型Article
WOS标题词Science & Technology
类目[WOS]Biochemistry & Molecular Biology ; Biophysics
研究领域[WOS]Biochemistry & Molecular Biology ; Biophysics
关键词[WOS]EXPRESSION ; CLASSIFICATION
英文摘要

Correlation coefficient between the expression levels of two genes plays an important role in the inference of their relationship in microarray experiments. Gene expression data before normalization often present high correlation coefficients among a large proportion of genes. Some of these high correlations are caused by changes in gene expression levels. However, most of them are caused by systematic errors. It is intended to eliminate superficial high correlations induced by systematic errors and at the same time, preserve high correlation coefficients stem from gene interactions. Although there are a number of comparisons among different normalization methods, less work focused on evaluating the effect of normalization procedures on correlation coefficients among genes and which method does the best in restoring gene correlation structure. Some gene expression data were simulated with reference to real world gene expression data. With the help of these simulated data, it was determined which normalization method does the best in restoring gene correlation structure. In addition, it was shown that the simulated data and the real world data have the same gene correlation structure, so the conclusion drawn from simulated data can be applied to the real world. For 5 normalization methods compared here, it can be concluded that the loess method is the most appropriate one in eliminating superficial correlation coefficients.

语种中文
WOS记录号WOS:000247615100011
Citation statistics
Cited Times:2[WOS]   [WOS Record]     [Related Records in WOS]
文献类型期刊论文
条目标识符http://ir.bjmu.edu.cn/handle/400002259/63295
Collection北京大学第三临床医学院_心血管内科
作者单位1.Peking Univ, Ctr Theoret Biol, Beijing 100871, Peoples R China
2.Peking Univ, Sch Math, Key Lab Pure & Appl Math, Beijing 100871, Peoples R China
3.Peking Univ, Hosp 3, Inst Vasc Med, Beijing 100083, Peoples R China
4.Minist Educ, Key Lab Mol Cardiovasc Sci, Beijing 100083, Peoples R China
Recommended Citation
GB/T 7714
Tan Xiao-Jun,Zhang Yong-Xin,Qian Min-Ping,et al. The comparison of different normalization methods in microarray data[J]. PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS,2007,34(6):625-633.
APA Tan Xiao-Jun,Zhang Yong-Xin,Qian Min-Ping,Zhang You-Yi,&Deng Ming-Hua.(2007).The comparison of different normalization methods in microarray data.PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS,34(6),625-633.
MLA Tan Xiao-Jun,et al."The comparison of different normalization methods in microarray data".PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS 34.6(2007):625-633.
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