Table 1 Effect of annotation and intensity based filters on the selection of TP and reduction of unspliced exon set (TN).
From: Dissecting an alternative splicing analysis workflow for GeneChip®Exon 1.0 ST Affymetrix arrays
Splicing set | Splicing set | Splicing set | ||||
|---|---|---|---|---|---|---|
128.32 vs 512 | 32.2 vs 128 | 2.0 vs 32 | ||||
TP (Sensitivity) | TN (Specificity) | TP (Sensitivity) | TN (Specificity) | TP (Sensitivity) | TN (Specificity) | |
Cross Hybridization filter | 172 (1.00) | 228264 (1.00) | 195 (1.00) | 228264 (1.00) | 179 (1.00) | 228264 (1.00) |
Multiple mRNAs filter | 172 (1.00) | 71037 (0.31) | 195 (1.00) | 71037 (0.31) | 179 (1.00) | 71037 (0.31) |
DABG filter (DABG p-value ≤ 0.05 in 90% arrays) | 172 (1.00) | 197951 (0.86) | 185 (0.95) | 197951 (0.86) | 170 (0.95) | 197951 (0.86) |