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

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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 - PowerPoint PPT Presentation

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Page 1: Microarray data: overview

Microarray data: overview

mRNA

cDNA

mRNA

cDNA

Normal cell

Tumour cell

RT

Page 2: Microarray data: overview

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

Page 3: Microarray data: overview

Microarray data: overview

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4 10.33

1

- Data = thousands of different coloured dots- Colour intensity = number

EXAMPLE: a) Four genesb) Arbitrary light unitsc) Ratio of red to green (red/green)

Page 4: Microarray data: overview

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

£££ / $$$

Page 5: Microarray data: overview

Microarray data: Partek

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Exploratory analysis

Gene analysis

Gene lists

Clustering

Biological pathways


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