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Table 2 3D-Jury receiver operating characteristic (ROC) analysis. t p ¯ R MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOuaifabeaaaaa@30F0@ – average number of true positive (tp) models in the [0 – 10] false positive (fp) range, using the reliability score provided by the server as the discrimination threshold; t p ¯ J MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOsaOeabeaaaaa@30E0@ – average number of tp in the [0 – 10] fp range using 3D-Jury score as the discrimination threshold; J0 – lowest 3D-Jury score before observing the first bad model; t p J 0 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWG0baDcqWGWbaCdaWgaaWcbaGaemOsaO0aaSbaaWqaaiabicdaWaqabaaaleqaaaaa@31F5@ – number of good models at or above J0 score; N t – number of targets The table shows results for the on-line default version of 3D-Jury: 3J1,A. Servers are ordered by t p ¯ J MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOsaOeabeaaaaa@30E0@ descending. Missing t p ¯ R MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOuaifabeaaaaa@30F0@ values indicate servers that did not return reliability scores. Five servers with t p ¯ R > t p ¯ J MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOuaifabeaakiabg6da+maanaaabaGaemiDaqNaemiCaahaamaaBaaaleaacqWGkbGsaeqaaaaa@3636@ are shown in italics. In order to assess 3D-Jury scores (Jscore) as reliability scores, we performed a ROC analysis adapted for CASP and Livebench data, comparing Jscore to the reliability scores provided by the servers. In terms of the average number of true positive models ( t p ¯ MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaaaaa@2F97@ ), the 3D-Jury score exceeds the original server score in 27 cases, it falls short of it in 5 cases out of the 38 analysed.

From: Evaluation of 3D-Jury on CASP7 models

Server

t p ¯ R MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOuaifabeaaaaa@30F0@

t p ¯ J MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOsaOeabeaaaaa@30E0@

J 0

t p J 0 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWG0baDcqWGWbaCdaWgaaWcbaGaemOsaO0aaSbaaWqaaiabicdaWaqabaaaleqaaaaa@31F5@

N t

Server

t p ¯ R MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOuaifabeaaaaa@30F0@

t p ¯ J MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaadaqdaaqaaiabdsha0jabdchaWbaadaWgaaWcbaGaemOsaOeabeaaaaa@30E0@

J 0

t p J 0 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWG0baDcqWGWbaCdaWgaaWcbaGaemOsaO0aaSbaaWqaaiabicdaWaqabaaaleqaaaaa@31F5@

N t

zhang-server [45]

-

71

19.5

68

85

ORFeus-2 [17]

61

62

45.6

61

83

Sam_t06_server [27]

-

69

18.9

67

85

phyre-1 [19]

-

62

41.2

58

77

hhpred2 [46]

68

68

49.5

59

85

shub [11]

65

62

51.4

58

83

fams [26]

-

68

21.6

67

85

foldpro [10]

-

62

25.8

60

85

pmodeller6 [2]

69

68

45.9

63

85

bilab-enable

26

62

27.5

60

84

famsd [26]

-

67

45.9

61

85

loopp [32]

55

62

33.1

60

85

circle [26]

-

67

37.4

63

85

protinfo [22]

-

62

83.5

50

85

raptoress [23]

-

67

30.6

63

85

fugue [25]

-

61

37.0

58

85

pcons6 [2]

69

67

46.9

63

84

phyre-2 [19]

55

60

37.1

60

83

metatasser [41]

-

67

29.8

64

85

3dpro [10]

-

59

34.6

58

85

hhpred1 [46]

64

67

54.1

59

85

karypis.srv.2 [39]

-

59

32.9

56

85

raptor [23]

37

67

37.9

62

85

fugmod [25]

55

58

24.9

57

79

robetta [37]

66

67

45.9

62

85

keasar-server [35]

-

58

74.5

53

81

sam-t02 [34]

-

66

25.0

62

82

sam-t99 [40]

-

58

11.9

58

61

karypis.srv [39]

-

66

31.4

59

83

nn_put_lab [47]

-

57

29.4

56

80

bayeshh [46]

64

65

34.5

63

85

rokky [42]

-

57

48.9

54

84

sp4 [31]

64

65

30.1

62

85

3D-PSSM [19]

52

57

44.0

56

84

uni-eid_bnmx

-

65

58.1

59

85

3d-jigsaw [24]

39

56

40.1

55

85

hhpred3 [46]

63

65

33.1

63

85

pdbblast [18]

56

56

54.1

55

81

BasD [12]

65

65

46.4

62

84

uni-eid_expm

54

55

41.0

52

67

sp3 [31]

64

65

45.9

61

85

3d-jigsaw_populus [24]

43

54

35.1

54

85

sparks2 [31]

62

65

35.4

63

85

3d-jigsaw_recom [24]

30

54

40.8

54

85

raptor-ace [23]

60

65

45.9

61

85

huber-torda-server [30]

34

54

23.4

53

82

uni-eid_sfst

32

65

40.2

59

83

forecast-s

-

53

39.5

53

84

mgen-3d [38]

-

64

29.9

63

83

distill [43]

32

44

31.4

44

85

ffas03 [13]

65

64

44.6

62

85

ma-opus-server2

-

44

36.9

41

55

function [26]

-

64

46.2

61

85

cphmodels [48]

-

40

43.2

40

41

ma-opus-server

-

64

43.4

60

85

frankenstein [33]

28

35

34.6

34

45

beautshot

48

63

47.8

61

85

gtg [28]

-

30

20.9

30

34

forte1 [36]

-

63

45.2

60

85

panther2

-

28

36.5

28

34

mgenthreader [38]

63

63

51.1

59

84

mig_frost [49]

-

23

43.4

23

34

forte2 [36]

-

63

48.2

60

85

abipro

-

16

20.2

14

84

nfold [16]

56

63

51.6

58

85

fugsa [25]

1

1

129.8

1

1

beautshotbase

48

63

41.8

61

83

mig_frost_flex [49]

1

1

73.0

1

2

caspita-fox

58

62

44.9

58

83

panther3

-

1

74.8

1

4

genesilicometaserver [33]

-

62

52.6

58

83

pomysl

-

1

0.0

0

50

protinfo-ab [22]

-

62

34.8

60

83

fpsolver-server [50]

-

0

0.0

0

81

inub [44]

63

62

51.2

59

85

karypis.srv.4 [39]

-

0

0.0

0

77