BI379 F09 Exercise 6 Key
A. How do you assess microarray data and cluster genes?
1.
Read math minutes 6.1, 6.2, 6.3
2.
Do Math Minute Discovery questions
MM6.2
#1 and #2
MM6.3
# 1 – 4.
MM6.2 #1:
The diagonal entries of Table MM6.2 need not be calculated, because r
AA
= 1 for any
gene A.
Furthermore, the entries above (or below) the diagonal entries need not be calculated,
because correleation is a symmetric function (i.e., r
AB
= r
BA
, for any two genes A and B).
How
many entries in Table MM6.2 must be calculated?
66.
MM6.2 #2:
Find a simple formula that represents the number of entries in Table MM6.2 that
must be calculated (i.e., your answer to Q1) as a function of the number of genes being compared.
number of entries = (x
2
– x)/2, where x = the number of genes being compared.
MM6.3 #1:
Compute the correlations between cluster [NH] and all other objects, forming a
table similar to Table MM6.3.
To do this, you need to average the expression values for N and H and then use them to calculate
the new correlations between NH and the other objects.
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 Spring '09
 Kavaler
 Genomics, LG, Pearson productmoment correlation coefficient, Table MM6.2

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