Table 8

CASP7 results, [6, 11] residue separation

template ID

[0,10)%

[10,20)%

[20,30)%

[30,40)%

[40,50)%

[50,60)%

[60,70)%

[70,80)%

All


proteins

29

29

16

4

7

4

3

1

93


positive pairs

3318

1990

1696

772

636

744

254

158

9568


negative pairs

60204

49856

43628

13682

13416

13146

3838

3112

200882


SAM_T06

12.2%

8.4%

9.4%

18.6%

12.5%

12.4%

11.5%

9.4%

11.0%


Betapro

26.0%

20.2%

27.8%

48.2%

26.9%

23.2%

27.9%

19.4%

25.7%


ProfCon

34.1%

31.4%

29.7%

40.2%

32.7%

32.3%

37.7%

41.2%

33.3%


Possum

17.2%

15.0%

18.5%

22.2%

21.5%

13.6%

18.3%

24.0%

17.4%


SVMcon

25.6%

25.0%

20.1%

23.6%

22.7%

25.9%

32.0%

36.7%

24.7%


8AI

37.0%

30.2%

31.7%

47.6%

45.8%

48.7%

39.6%

59.6%

37.2%


8TE

34.5%

41.6%

54.2%

78.4%

77.7%

91.1%

95.8%

92.8%

53.3%


Results for the CASP7 targets: sequence separations of 6 to 11 residues, inclusive. Comparison between our two predictors (8AI and 8TE) and the predictors ranked highest at CASP7. We report F1 for the contact class, as a function of sequence similarity to the best PSI-BLAST template. Predictions are from the CASP7 web site. ProfCon is in italics because it predicted 73 out of 93 maps, hence its results are not exactly comparable. In bold is the highest F1 of all predictors, excluding ProfCon, and excluding 8TE, which uses templates and has the highest F1 in all ranges except [0,10)% where it is slightly worse than only 8AI.

Walsh et al. BMC Structural Biology 2009 9:5   doi:10.1186/1472-6807-9-5

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