Evaluation of time profile reconstruction from complex two-color microarray designs

BMC Bioinformatics

Table 5 Assessing the effect of array failure on estimated ratios for the loop design

Array removed	lmbr	anovaFix	anovaMix	Conditions affected
1	0.5964	0.6461	0.5312	T1/T3
2	0.7161	0.7545	0.6559	T3/T5
3	0.6713	0.8883	0.7606	T5/T6
4	0.5697	0.7883	0.6637	T6/T4
5	0.4359	0.6042	0.5534	T4/T1
Mean	0.5979	0.7363	0.6330

The different methods for which the influence of array failure was assessed are represented in the columns. Each row shows the mean correlation between the corresponding estimated ratios from the complete design and those obtained from a defect design (where one array was removed compared to the complete design). Mean: shows the overall mean correlation for a given method. Lmbr_dye and limmaQual were not evaluated as in this particular case they lose their main differing characteristic compared to lmbr.

ISSN: 1471-2105