Table 2

Mean similarity between profiles for both the interwoven and the loop design

Interwoven design
 Loop design

lmbr
 lmbr_dye
 limmaQual
 anovaFix
 lmbr/lmbr_dye
 limmaQual
 anovaFix
lmbr_dye
 0.9477


1.0000

limmaQual
 0.9940
 0.9359

0.9844

anovaFix
 0.9321
 0.9572
 0.9157
0.9514
 0.9252
anovaMix
 0.9138
 0.9373
 0.8989
 0.9767
 0.9186
 0.8934
 0.9611

Values in the table correspond to the similarity between any two methods, expressed as the mean profile similarity of the genes. Since the loop design is balanced with respect to the dyes, the results for lmbr and lmbr_dye were the same (see 'Methods' section), which is why they are not treated differently. No filtering applied and similarity is assessed for all 2999 profile estimates.

Fierro et al. BMC Bioinformatics 2008 9:1   doi:10.1186/1471-2105-9-1