Proposed methods for testing and selecting the ERCC external RNA controls

Table 7 Expected red:green ratios in two-color hybridizations

Array	Pool in Green Channel	Pool in Red Channel	Group A Ratio	Group B Ratio	Group C Ratio	Group D Ratio
1	P7-D1	P10-D1	0.008	5	5	5
2	P8-D1	P9-D1	0.2	0.2	125	0.2
3	P9-D1	P8-D1	5	5	0.008	5
4	P10-D1	P7-D1	125	0.2	0.2	0.2
5	P7-D2	P8-D2	0.2	125	0.2	0.2
6	P8-D2	P7-D2	5	0.008	5	5
7	P9-D2	P10-D2	0.2	0.2	0.2	125
8	P10-D2	P9-D2	5	5	5	0.008
9	P7-D3	P9-D3	0.04	25	25	0.04
10	P8-D3	P10-D3	0.04	0.04	25	25
11	P9-D3	P7-D3	25	0.04	0.04	25
12	P10-D3	P8-D3	25	25	0.04	0.04
13*	P7-D4	P7-D4	1	1	1	1
14*	P8-D4	P8-D4	1	1	1	1
15*	P9-D4	P9-D4	1	1	1	1
16*	P10-D4	P10-D4	1	1	1	1

*Self-to-self hybridizations
Pools in each channel are labeled based on their pool and dilution numbers in Table 6.
Groups are sets of transcripts at the same concentration as defined in Table 4.

ISSN: 1471-2164