Material for exam: lecture slides + the following material 
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Biology: Draghici Ch 1

Microarray technology: Draghici Ch 2, 3

Preprocessing: Draghici Ch 3, 4, 8, 12 + (Wu et al. JASA, 2004,
99,468:909-917,  http://www.genomine.org/publications.html) (GCRMA)

Basic hypothesis testing: Draghici Ch 4,5,6,7,9,13 + (Storey, 2002,
JRSSB, 64:479-498) (q-values) + (Efron and Tibshirani, 2007, Annals of
statistics, http://www-stat.stanford.edu/~tibs/ )

Visualization: Draghici Ch 10 +  Gentleman at al., Bioinformatics and 
Computational Biology Solutions Using R and Bioconductor: Ch 3

Clustering: Draghici Ch 11 + Madeira and Oliveira, TCBB, 1,1,2004 +
Manly: Randomization, Bootstrap and Monte Carlo Methods in Biology,
pp. 1-9 (randomization), 41-51 (bootstrap)

Classification: Theodoridis and Koutroumbas, Pattern Recognition: Ch
1,2,3.1,3.2,3.6,4.17-4.19,5.1-5.7 + Diaz-Uriarte et al. Bioinformatics
2006 + Guyon et al. JMLR, 2003 (further reading) + S. Haykin: Neural
Networks:pp. 217-218 (cross-validation).

Mass spectrometry and systems biology: Katajamaa and Oresic, 2005, BMC
Bioinformatics + Listgarten and Emili, 2005, Molecular & Cellular
Proteomics.

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The exam: 5 questions, max 30 points, 0-2 points from exercise work,
over ~15 points: pass, 

The material additional to Dragichi is available from room (B336),
grey chest of drawers in the left corner, yellow folder in the second
top-most drawer.

NOTE! There is a lot of material: You do not need to know details by
heart. Instead, focus on the basic ideas: what are the key ideas in
this method, why this method is good, what differentiates it from the
others, what are the weaknesses.