Microarray Data Analysis Assignment

(25% of CA578/579 As Appropriate)

Instructions:

1. Take the raw data
1. DataSet_1
2. DataSet_2
3. DataSet_3
4. DataSet_4
5. DataSet_5
2. Implement the Hierarchical Clustering algorithm with UPGMA (Average distance between clusters) and various distance metrics (Pearson, Manhattan).
3. Results required: plot of data in experiment space showing the clustering according to the various distance metrics and a text file with gene clustering using the notation: (A, ((B,C),D)) meaning B & C are closest and then D etc
4. Write a concise (2 page max) report on the project summarising your results.
5. Individual effort is required.  Please write and sign a declaration on your submission of the form: "Except where otherwise stated, the following is all my own work.  I have read and am aware of the University's rules concerning plagiarism."  These rules are shown here
6. Due 5pm on Monday 21st April.  Penalty of 5% per day late.
7. Here are some hints (and the weblink from the tutorial)
8. Notes from the tutorial