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Data analysis issues for allele-specific expression using Illumina's GoldenGate assay
Authors:Matthew E Ritchie  Matthew S Forrest  Antigone S Dimas  Caroline Daelemans  Emmanouil T Dermitzakis  Panagiotis Deloukas  Simon Tavaré
Institution:(1) Bioinformatics Division, The Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, Victoria, 3052, Australia;(2) Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK;(3) Wellcome Trust Center for Human Genetics, University of Oxford, Roosevelt Drive, Oxford, OX3 7BN, UK;(4) Department of Genetic Medicine and Development, University of Geneva Medical School, 1 Rue Michel-Servet, Geneva, 1211, Switzerland;(5) Department of Obstetrics and Gynecology, Institute for Women's Health, University College London, 86-96 Chenies Mews, London, WC1E 6HX, UK;(6) Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK
Abstract:

Background  

High-throughput measurement of allele-specific expression (ASE) is a relatively new and exciting application area for array-based technologies. In this paper, we explore several data sets which make use of Illumina's GoldenGate BeadArray technology to measure ASE. This platform exploits coding SNPs to obtain relative expression measurements for alleles at approximately 1500 positions in the genome.
Keywords:
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