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Correction of fluorescence bias on Affymetrix genotyping microarrays
Author(s) -
Rippe Ralph C. A.,
Meulman Jacqueline J.,
Eilers Paul H. C.
Publication year - 2012
Publication title -
journal of chemometrics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.47
H-Index - 92
eISSN - 1099-128X
pISSN - 0886-9383
DOI - 10.1002/cem.2436
Subject(s) - genotyping , dna microarray , computational biology , single nucleotide polymorphism , genotype , genetics , biology , gene , gene expression
Fluorescence signals obtained from microarrays for single nucleotide polymorphism genotyping show systematic strong variations in the levels for single nucleotide polymorphisms and arrays as well as genotypes. Linear models that take all three effects into account fit very well. Once the model parameters have been estimated for a set of reference arrays, they can be used to calibrate new arrays in a simple way, thereby improving genotyping and analysis of copy number variations and allelic imbalance. Copyright © 2012 John Wiley & Sons, Ltd.