| PMC full text: | Published online 2006 Jan 24. doi: 10.1186/1472-6750-6-7
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Table 3
Comparison of knockdown efficacy and siRNA design algorithm. Average knockdown was measured by real-time PCR of triplicate samples. All averages are accurate within 10% SEM. Asterisks indicate high Takasaki et al. algorithm scores that have poor corresponding knockdown efficacy.
| 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 |
| nomenclature | cell tested | % knockdown | 5' ΔΔG | Reynolds | Hsieh | Amarzguioui | Ui-Tei | Takasaki |
| shASC-721 | THP1 | 91 | 0.65 | 6 | 0 | 2 | 2 | 8.07 |
| shASC-743 | THP1 | 74 | -2.86 | 5 | 2 | 4 | 2 | 7.33 |
| shCLR16.2-482 | jurkat | 37 | -1.42 | 5 | 3 | 4 | 3 | 10.1 * |
| shCLR16.2-716 | jurkat | 64 | -1.68 | 6 | 0 | 4 | 3 | 5.05 |
| shCLR16.2-3394 | jurkat | 74 | 1.06 | 9 | 2 | 3 | 4 | 0 |
| shCLR16.2-1630 | jurkat | 59 | -8.1 | 8 | 1 | 5 | 4 | 4.81 |
| shCLR19.3-667 | THP1 | 71 | -1.59 | 3 | 1 | 1 | 1 | 10.1 |
| shCLR19.3-991 | THP1 | 13 | -4.62 | 5 | 2 | 3 | 3 | 10.1 * |
| shCLR19.3-1504 | THP1 | 70 | 1.06 | 4 | 0 | 0 | 0 | 8.42 |
| shCLR19.6-888 | jurkat | <10% | -0.33 | 5 | 2 | 2 | 2 | 3.78 |
| shCLR19.6-1549 | jurkat | <10% | -2.13 | 5 | 1 | 2 | 1 | -2.6 |
| shCLR19.6-2249 | jurkat | <10% | -2.22 | 4 | 3 | 4 | 3 | 9.8 * |
| shMAL-1374 | THP1 | 69 | -1.86 | 8 | 0 | 2 | 2 | -11 |
| shMAL-1504 | THP1 | 65 | -1.54 | 8 | 0 | 0 | 1 | -3.8 |
| shMYD88-1830 | THP1 | 73 | 3.06 | 5 | 3 | 1 | 3 | 2.7 |
| shMYD88-2207 | THP1 | 53 | -1.31 | 5 | 2 | 1 | 2 | -4 |
| shTLR2-1625 | THP1 | 59 | -3.85 | 9 | 0 | 3 | 4 | 3.13 |
| shTLR2-2271 | THP1 | 57 | 1.84 | 4 | 1 | 1 | 0 | 14.7 |
| shTLR4-2377 | THP1 | 79 | 0.61 | 4 | 0 | 1 | -2 | -6.6 |
| shTLR4-1923 | THP1 | <10% | -2.58 | 6 | 1 | 4 | 3 | -0.1 |
| shTLR4-806 | THP1 | <10% | 1.52 | 4 | 2 | -2 | -2 | -0.7 |
| shTRAF6-936 | THP1 | 51 | -0.18 | 9 | 2 | 3 | 4 | 0 |
| shTRAF6-1326 | THP1 | 62 | -2.83 | 5 | 2 | 3 | 3 | 13.1 |
| shTRAF6-1563 | THP1 | 53 | 0.26 | 3 | 0 | 3 | 0 | 7.38 |
| shTRAM-290 | THP1 | <10% | 1.18 | 8 | 0 | 1 | 2 | -8.9 |
| shTRAM-482 | THP1 | <10% | -1.92 | 9 | 2 | 1 | 2 | -1.4 |
| shTRIF-1786 | THP1 | <10% | -0.99 | 8 | 1 | 0 | 0 | 1.03 |