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Microarray data: overview

Microarray data: overview. mRNA. cDNA. Normal cell. RT. cDNA. mRNA. Tumour cell. Microarray data: overview. cDNA samples are mixed together and hybridize to complementary DNA on the microarray a laser scanner measures the fluorescence of each spot. Superimposed

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Microarray data: overview

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  1. Microarray data: overview mRNA cDNA Normal cell RT cDNA mRNA Tumour cell

  2. Microarray data: overview • cDNA samples are mixed together and hybridize to complementary DNA on the microarray • a laser scanner measures the fluorescence of each spot. Superimposed • fluorescence intensity is related to amount of cDNA in sample = mRNA = gene

  3. Microarray data: overview • Data = thousands of different coloured dots • Colour intensity = number • EXAMPLE: • Four genes • Arbitrary light units • Ratio of red to green (red/green)

  4. Microarray data: analysis • Thousands of genes + 10s, 100s of samples = DATA • Need to use specialized software • Two options: same destination, different style * Free software (R/Bioconductor) * Commercial software (Partek/Genespring £££ / $$$

  5. Microarray data: Partek Gene analysis Upload files Exploratory analysis Gene lists Clustering Biological pathways Add sample information QC info

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