Table 1

SVM performance during testing (labeled with the keyword 'Max') and comparison with SIFT predictions.

HGMD

dbSNP

TP

FN

TN

FP

Sensitivity

Specificity

Accuracy

F-measure

Testing set created using random mutations not used for training

SVM Complete ; Max

16527

3567

64378

12454

82.2

83.8

83.5

67.4

SVM Conservation Only ; Max

14467

5627

49178

27659

72.0

64.0

65.7

46.5

Testing set created to allow comparison with SIFT

SIFT

159

245

13995

5281

39.4

72.6

71.9

5.4

SVM Complete

287

117

12049

7227

71.0

62.5

62.7

7.2

SVM Conservation Only

230

174

10216

9060

56.9

53.0

53.1

4.7

Abbreviations: TP = True Positives; FP False Positives; TN = True Negatives; FN = False Negatives.

Kulkarni et al. BMC Bioinformatics 2008 9(Suppl 9):S3   doi:10.1186/1471-2105-9-S9-S3