Bioinformatics · 2006 · 10 citations · 6 references
Life SciencesBiostatisticsMolecular BiologyGene ExpressionGene Expression AnalysisGenomicsAssay ValidationDifferential Gene Expression AnalysisRna Quality ControlRna Sequencing AnalysisTranscriptomic ProfilingExternal VerificationInstallation InstructionsMicroarray AnalysisMixed Model MethodologyNucleic Acid Hybridization AssaysPoint EstimateRna Quality AssessmentTranscriptome Quality Control
UNLABELLED: This paper describes a stand-alone application for estimating the 3' to 5' ratio by fitting a mixed effects model to the interior pixel intensities of perfect match probes for selected control probe sets from an Affymetrix *.DAT file. The effectiveness of this method was demonstrated previously by an application of the method to two microarray datasets for which external verification of RNA quality was known. This application provides a more objective assessment of sample quality in that both a point estimate and 95% confidence interval about the 3' to 5' ratio are provided. AVAILABILITY: The software and installation instructions are freely available for download at http://www.people.vcu.edu/~kjarcher/Research/Data.htm
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R: A Language and Environment for Statistical Computing
R Core Team · 2000 · 353K citations · Full text
Natural Sciences, Computer Science, Statistical Computing +10
Mixed-Effects Models in S and S-PLUS
Technometrics · 2001 · 9.4K citations · Full text
Evaluation of Quality-Control Criteria for Microarray Gene Expression Analysis
Catherine I. Dumur, Al M. Best, Kellie J. Archer et al. · Clinical Chemistry · 2004 · 110 citations · Full text