Comparison of different normalization assumptions for analyses of DNA methylation data from the cancer genome

• Published in: Gene Vol. 506; no. 1; pp. 36 - 42
• Main Authors: Wang, Dong, Zhang, Yuannv, Huang, Yan, Li, Pengfei, Wang, Mingyue, Wu, Ruihong, Cheng, Lixin, Zhang, Wenjing, Zhang, Yujing, Li, Bin, Wang, Chenguang, Guo, Zheng
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 10.09.2012
• Subjects: Algorithms; Cancer genome; Colorectal Neoplasms; Colorectal Neoplasms - genetics; data collection; Data Interpretation, Statistical; Data normalization; Databases, Nucleic Acid; Differential methylation; DNA Methylation; genes; genetics; Genome, Human; Humans; Kidney Neoplasms; Kidney Neoplasms - genetics; Lung Neoplasms; Lung Neoplasms - genetics; Microarray; Neoplasms; Neoplasms - genetics; Oligonucleotide Array Sequence Analysis; Oligonucleotide Array Sequence Analysis - statistics & numerical data; Reproducibility; Reproducibility of Results; statistics & numerical data; Stomach Neoplasms; Stomach Neoplasms - genetics; DE; PPI; DM; POG; Microarray; Differential methylation; M; TCGA; Cancer genome; GEO; U; FDR; Reproducibility; SNR; DNA methylation; HPRD; Data normalization

Nowadays, some researchers normalized DNA methylation arrays data in order to remove the technical artifacts introduced by experimental differences in sample preparation, array processing and other factors. However, other researchers analyzed DNA methylation arrays without performing data normalizat...