Microarray Analysis - The Basics

← Back to document page

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) Microarray

Multiply one channels with normalization factor)Ch2 x mCh1/mCh2 (treats both channels di erently) Linear regression t of log2(Ch2) against log2(Ch1))adjust Ch1 with tted values (treats both channels ... Microarray Analysis Homework Assignment Slide 37/42. De ne Replicates and Treatments Generatetargets.txt le and save it in your working directory.

  Analysis, Basics, Factors, Microarray, Microarray analysis the basics