Microarray Analysis - The Basics

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Microarray AnalysisThe BasicsThomas GirkeDecember 9, 2011Microarray AnalysisSlide 1/42TechnologyChallengesData AnalysisData DepositoriesR and BioConductorHomework AssignmentMicroarray AnalysisSlide 2/42OutlineTechnologyChallengesData AnalysisData DepositoriesR and BioConductorHomework AssignmentMicroarray AnalysisTechnologySlide 3/42Microarray and Chip TechnologyDefinitionHybridization-based technique that allows simultaneousanalysis of thousands of samples on a solid ProfilingGene copy numberResequencingGenotypingSingle-nucle otide polymorphismDNA-protein interaction ( : ChIP-on-chip)Gene discovery ( : Tiling arrays)Identification of new cell technologiesProtein arraysCompound arraysMicroarray AnalysisTechnologySlide 4/42Why Microarrays?

Filtering (optional) Intensities below detection limit Negative intensities Spacial quality issues Background correction ... to force the distribution of all ratios to have a median (mean) of 1 or the log-ratios to have a median (mean) of 0. Microarray Analysis Data Analysis Slide 18/42.

  Analysis, Basics, Median, Filtering, Microarray, Microarray analysis the basics