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» Statistical issues in the analysis of Illumina data
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BMCBI
2008
120views more  BMCBI 2008»
13 years 5 months ago
Statistical issues in the analysis of Illumina data
Background: Illumina bead-based arrays are becoming increasingly popular due to their high degree of replication and reported high data quality. However, little attention has been...
Mark J. Dunning, Nuno L. Barbosa-Morais, Andy G. L...
BMCBI
2010
133views more  BMCBI 2010»
13 years 5 months ago
Data analysis issues for allele-specific expression using Illumina's GoldenGate assay
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 explo...
Matthew E. Ritchie, Matthew S. Forrest, Antigone S...
BMCBI
2010
106views more  BMCBI 2010»
12 years 12 months ago
Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data
Background: A key stage for all microarray analyses is the extraction of feature-intensities from an image. If this step goes wrong, then subsequent preprocessing and processing s...
Mike L. Smith, Mark J. Dunning, Simon Tavaré...
BMCBI
2011
12 years 12 months ago
Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips
Background: Illumina’s Infinium SNP BeadChips are extensively used in both small and large-scale genetic studies. A fundamental step in any analysis is the processing of raw all...
Matthew E. Ritchie, Ruijie Liu, Benilton Carvalho,...
BMCBI
2010
156views more  BMCBI 2010»
13 years 5 months ago
Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
Background: High-throughput sequencing technologies, such as the Illumina Genome Analyzer, are powerful new tools for investigating a wide range of biological and medical question...
James H. Bullard, Elizabeth Purdom, Kasper D. Hans...