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.

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