Table 1 |
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Estimates of array variance, var(earray), for three Illumina arrays types for normalized and raw data. |
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1M-Single |
1M-Duo |
660-Quad |
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Normalized data Var(earray) (Range) |
3.8 × 10-4 (2.2 × 10-4 - 6.6 × 10-4) |
3.2 × 10-4 (1.6 × 10-4 - 6.3 × 10-4) |
3.3 × 10-4 (2.5 × 10-4 - 4.9 × 10-4) |
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Raw data Var(earray) (Range) |
2.9 × 10-3 (3.0 × 10-4 - 9.2 × 10-3) |
9.0 × 10-4 (1.7 × 10-4 - 4.3 × 10-3) |
2.7 × 10-3 (2.0 × 10-3 - 3.0 × 10-3) |
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Number of pools |
12 |
8 |
7 |
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Number of comparisons, var(earray)(1) |
12 |
45(2) |
360 |
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Number of arrays (arrays/pool) |
24 (2/pool) |
32 (4/pool) |
72 (6 or 12/pool) |
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1Each paired array comparison is treated as an independent estimate of array variance, the average of which is reported in this table. 2One array, in all 3 comparisons in which it was involved, produced extreme outlier var(earray) values and was removed from all analysis; hence, there are 45 instead of 48 var(earray) for the 1M-Duo arrays. |
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Earp et al. BMC Medical Genomics 2011 4:81 doi:10.1186/1755-8794-4-81 |
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