Exercises:DNA microarray analysis

We will use the TIGR MultiExperiment Viewer (TMEV) Java software package for the analysis of microarray data. You will look at the distribution of measured microarray fluorescence intensities and see the influence of normalization. Furthermore, you will apply some unsupervised learning techniques such as hierarchical clustering and k-means clustering on simulated microarray data. You will also apply hierarchical clustering on a yeast cell-cycle microarray data set as published by Spellman et al.

• Exercises
• Answers to Exercises

• Microarray data
  • JQ_stanford.txt (Exercise B)
  • Reduced_Spellman2.txt (Exercise C1-3)
  • Reduced_Spellman.txt (Exercise C4)
  • Spellman et al (Exercise C)

• Microarray software: The exercises use the TIGR Multiexperiment Viewer (TMEV) Java software package. TMEV is installed on the PCs in the exercise rooms.