Genomics & Informatics

Korea Genome Organization (한국유전체학회)
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An Iterative Normalization Algorithm for cDNA Microarray Medical Data Analysis

  • Kim, Yoonhee (Department of Biostatistics and Epidemiology, School of Public Health, and Institute of Health and Environment, Seoul National University) ;
  • Park, Woong-Yang (Department of Biochemistry Seoul National University College of Medicine) ;
  • Kim, Ho (Department of Biostatistics and Epidemiology, School of Public Health, and Institute of Health and Environment, Seoul National University)
  • Published : 2004.06.01
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Abstract

A cDNA microarray experiment is one of the most useful high-throughput experiments in medical informatics for monitoring gene expression levels. Statistical analysis with a cDNA microarray medical data requires a normalization procedure to reduce the systematic errors that are impossible to control by the experimental conditions. Despite the variety of normalization methods, this. paper suggests a more general and synthetic normalization algorithm with a control gene set based on previous studies of normalization. Iterative normalization method was used to select and include a new control gene set among the whole genes iteratively at every step of the normalization calculation initiated with the housekeeping genes. The objective of this iterative normalization was to maintain the pattern of the original data and to keep the gene expression levels stable. Spatial plots, M&A (ratio and average values of the intensity) plots and box plots showed a convergence to zero of the mean across all genes graphically after applying our iterative normalization. The practicability of the algorithm was demonstrated by applying our method to the data for the human photo aging study.

Keywords

References

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