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CES-484 Row Quantile Normalisation of Microarrays

Langdon, William B (2008) CES-484 Row Quantile Normalisation of Microarrays. Technical Report. CES-484, University of Essex, Colchester.

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Abstract

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.

Item Type: Monograph (Technical Report)
Uncontrolled Keywords: Normalisation, Gene expression, High-density oligonucleotide array, data mining, standard chip, MIAME
Subjects: Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Divisions: Faculty of Science and Health > Biological Sciences, School of
Faculty of Science and Health > Computer Science and Electronic Engineering, School of
Faculty of Science and Health > Mathematical Sciences, Department of
Depositing User: Carla Watkins
Date Deposited: 02 Oct 2014 15:40
Last Modified: 16 Dec 2014 11:21
URI: http://repository.essex.ac.uk/id/eprint/9727

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