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Chapter 1
The ALL Data Set
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Chapter 2
R and Bioconductor Introduction
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Chapter 3
Processing Affymetrix Expression Data
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Chapter 4
Two Color Arrays
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Chapter 5
Fold Changes, Log-ratios, Background Correction, Shrinkage Estimation and Variance Stabilisation
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Chapter 6
Easy Differential Expression
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Chapter 7
Differential Expression
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Chapter 8
Annotation and Metadata
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Chapter 9
Supervised Machine Learning
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Chapter 10
Unsupervised Machine Learning
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Chapter 11
Using Graphs for Interactome Data
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Chapter 12
Graph Layout
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Chapter 13
Gene Set Enrichment Analysis
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Chapter 14
Hypergeometric Testing used for Gene Set Enrichment Analysis