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Microarray Analysis - The Basics

Microarray AnalysisThe BasicsThomas GirkeDecember 9, 2011 Microarray AnalysisSlide 1/42 TechnologyChallengesData AnalysisData DepositoriesR and BioConductorHomework AssignmentMicroarray AnalysisSlide 2/42 OutlineTechnologyChallengesData AnalysisData DepositoriesR and BioConductorHomework AssignmentMicroarray AnalysisTechnologySlide 3/42 Microarray 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 4/42 Why Microarrays?

Grid alignment (linkage between spots and feature IDs) Signal quanti cation: mean, median, threshold, etc. ... (dynamic range limits) Pre-scanning: hybridize equal amounts of label ... Complete statistical package and programming language Useful for all bioscience areas

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