Original
Permuted
Treatment
Condition
log
_{2}
CPM
Treatment
Condition
log
_{2}
CPM
A
M
5.0
A
N
5.0
A
M
10.0
B
M
10.0
A
N
2.5
B
M
2.5
A
N
2.0
A
N
2.0
A
N
3.0
A
M
3.0
B
M
1.5
B
N
1.5
B
M
2.0
A
N
2.0
B
N
7.0
B
M
7.0
B
N
6.5
A
N
6.5
Table 3:
Example of how permutation of experimental design is conducted. Experimental treatment labels are permuted, which breaks any association with expression. Any patterns seen in these permuted data sets is consistent with random variability.