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Table 2 Performances of GenoMycAnalyzer for genotypic drug susceptibility testing

From: GenoMycAnalyzer: a web-based tool for species and drug resistance prediction for Mycobacterium genomes

Drug

Phenotypically resistant

Phenotypically susceptible

Performancesb

RAVa

Total

RAVa

Total

Sensitivity

(95% CI)

Specificity

(95% CI)

PPV

(95% CI)

NPV

(95% CI)

Present

Absent

Present

Absent

Rifampicin

1688

73

1761

93

3315

3408

95.9%

(94.8%-96.7%)

97.3%

(96.7%-97.8%)

94.8%

(93.7%-95.7%)

97.9%

(97.3%-98.3%)

Isoniazid

1827

181

2008

71

3075

3146

91.0%

(89.7%-92.2%)

97.7%

(97.2%-98.2%)

96.3%

(95.3%-97.0%)

94.4%

(93.7%-95.1%)

Ethambutol

998

112

1110

284

3201

3485

89.9%

(88.0%-91.6%)

91.9%

(90.9%-92.7%)

77.9%

(75.8%-79.7%)

96.6%

(96.0%-97.2%)

Pyrazinamide

747

191

938

89

2276

2365

79.6%

(76.9%-82.2%)

96.2%

(95.4%-97.0%)

89.4%

(87.2%-91.2%)

92.3%

(91.3%-93.1%)

Levofloxacin

53

1

54

2

48

50

98.2%

(90.1%-100.0%)

96.0%

(86.3%-99.5%)

96.4%

(87.2%-99.0%)

98.0%

(87.3%-99.7%)

Moxifloxacin

137

13

150

118

560

678

91.3%

(85.6%-95.3%)

82.6%

(79.5%-85.4%)

53.7%

(49.5%-58.0%)

97.7%

(96.2%-98.6%)

Amikacin

213

45

258

14

1042

1056

82.6%

(77.4%-87.0%)

98.7%

(97.8%-99.3%)

93.8%

(90.0%-96.3%)

95.9%

(94.7%-96.8%)

Capreomycin

200

67

267

42

1104

1146

74.9%

(69.3%-80.0%)

96.3%

(95.1%-97.4%)

82.6%

(77.8%-86.6%)

94.3%

(93.1%-95.3%)

Kanamycin

465

39

504

25

1129

1154

92.3%

(89.6%-94.4%)

97.8%

(96.8%-98.6%)

94.9%

(92.7%-96.5%)

96.7%

(95.5%-97.5%)

Streptomycin

762

216

978

110

2176

2286

77.9%

(75.2%-80.5%)

95.2%

(94.2%-96.0%)

87.4%

(85.2%-89.3%)

91.0%

(90.0%-91.9%)

Ethionamide

280

73

353

158

611

769

79.3%

(74.7%-83.4%)

79.5%

(76.4%-82.3%)

63.9%

(60.4%-67.3%)

89.3%

(87.2%-91.2%)

  1. aPresent is the number of isolates with resistance-associated variants that overlap with high-confidence variants (grade 1 or 2) of the WHO mutational catalogue
  2. RAV resistance-associated variant
  3. bTo calculate the predictive performances of GenoMycAnalyzer, pDST was assumed to be the gold standard
  4. PPV positive predictive value, NPV negative predictive value