BMC Bioinformatics

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Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios

Johan Staaf, Johan Vallon-Christersson, David Lindgren, Gunnar Juliusson, Richard Rosenquist, Mattias Höglund, Åke Borg and Markus Ringnér*

BMC Bioinformatics 2008, 9:409 doi:10.1186/1471-2105-9-409

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Research article   Open Access

Allele-specific disparity in breast cancer

Fatemeh Kaveh, Hege Edvardsen, Anne-Lise Borresen-Dale, Vessela N Kristensen, Hiroko K Solvang BMC Medical Genomics 2011, 4:85 (21 December 2011)

Research article   Open Access

Batch effect correction for genome-wide methylation data with Illumina Infinium platform

Zhifu Sun, High Chai, Yanhong Wu, Wendy M White, Krishna V Donkena, Christopher J Klein, Vesna D Garovic, Terry M Therneau, Jean-Pierre A Kocher BMC Medical Genomics 2011, 4:84 (16 December 2011)

Research article   Open Access

Identification, utilisation and mapping of novel transcriptome-based markers from blackcurrant (Ribes nigrum)

Joanne R Russell, Micha Bayer, Clare Booth, Linda Cardle, Christine A Hackett, Pete E Hedley, Linzi Jorgensen, Jenny A Morris, Rex M Brennan BMC Plant Biology 2011, 11:147 (28 October 2011)

Method   Open Access Highly Accessed

A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data

Christopher Yau, Dmitri Mouradov, Robert N Jorissen, Stefano Colella, Ghazala Mirza, Graham Steers, Adrian Harris, Jiannis Ragoussis, Oliver Sieber, Christopher C Holmes Genome Biology 2010, 11:R92 (21 September 2010)

OncoSNP is a method for detecting CNVs in tumors from SNP array data that can account for contaminating healthy tissue.

Methodology article   Open Access

Data analysis issues for allele-specific expression using Illumina's GoldenGate assay

Matthew E Ritchie, Matthew S Forrest, Antigone S Dimas, Caroline Daelemans, Emmanouil T Dermitzakis, Panagiotis Deloukas, Simon Tavaré BMC Bioinformatics 2010, 11:280 (26 May 2010)

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The pitfalls of platform comparison: DNA copy number array technologies assessed

Christina Curtis, Andy G Lynch, Mark J Dunning, Inmaculada Spiteri, John C Marioni, James Hadfield, Suet-Feung Chin, James D Brenton, Simon Tavaré, Carlos Caldas BMC Genomics 2009, 10:588 (8 December 2009)