Handson Introduction to Genespring Setting up experiments

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Handson Introduction to Genespring -Setting up
experiments

• Neil Graham

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• Double-click on GeneSpring icon.

• Select Arabidopsis Affy 22kand click OK.

• A GeneSpring GX window opens.

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Importing data
Click file gt import data gt select 1 CEL file
Select Affy22k genome
Select RMA normalisation
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Importing data
Select all the cel files Click next
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Adding sample attributes
Click New attribute Select Age gt ok
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Adding sample attributes
Fill in details gt next
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Creating an experiment
Click Yes
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Creating an experiment
Save experiment with suitable name
Select normalisations
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Creating an experiment
Delete Data transformation Delete Per
Chip Click ok
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Creating an experiment
Select Import Parameter
Parameters
Select Age gt ok gt save
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Creating an experiment
Experimental Interpretations
Un-check Use cross-gene error
Set Age to continuous All others to do not
display gt Save
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Creating an experiment
Close