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?Simultaneous Analysis of thousands of genesDiscovery of gene functionsGenome-wide network analysisAnalysis of mutants and transgenicsIdentification of drug targetsCausal understanding of diseasesClinical studies and field trialsMicroarray AnalysisTechnologySlide 5/42Different Types of MicroarraysSingle channel approachesAffymetrix gene chipsMacroarraysMultiple channel approachesDual color (cDNA) microarraysSpecialty approachesBead arrays: Lynx, Illumina.

Sources of Variation in Transcriptional Pro ling Experiments Every step in transcriptional pro ling experiments can contribute to the inherent ’noise’ of array data. Variations in biosamples, RNA quality and target labeling are normally the biggest …

  Analysis, Basics, Transcriptional, Microarray, Microarray analysis the basics