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Publication Detail
Row Quantile Normalisation of Microarrays
  • Publication Type:
  • Authors:
    Langdon WB
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  • Place of publication:
    Colchester, CO4 3SQ, UK
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  • Notes:
    keywords: Normalisation , Gene expression , High-density oligonucleotide array , data mining , standard chip , MIAME notes: TR version of \citelangdon:rownorm size: 6 pages
Variation in tissue sample preparation leads to variation across the Transcriptome not just between experiments but to between individual microarrays. Normalisation is essential before data from different arrays can be compared. Quantile normalisation can be used to force data from a single GeneChip to take a given distribution. However quantile normalisation can be blind to the consistent spatial variation we note in thousands of Affymetrix’ High-density oligonucleotide array (HDONAs) from NCBI GEO. We propose a simple computationally efficient normalisation technique which takes into account the spatial aspect. BioConductor R code is included.
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