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Table 2 Sensitivity and specificity of WGS-based antimicrobial resistance predictions against the broth microdilution reference AST. Epidemiological cut-offs are applied as interpretive criteria for the reference AST

From: Determining antimicrobial susceptibility in Salmonella enterica serovar Typhimurium through whole genome sequencing: a comparison against multiple phenotypic susceptibility testing methods

Antimicrobial Genotyping sensitivity (95% CI) Genotyping specificity (95% CI)
Ampicillin 0.96 (0.88–1) 0.93 (0.82–0.99)
Chloramphenicol 0.94 (0.83–0.99) 0.94 (0.84–0.99)
Ciprofloxacin 0.85 (0.66–0.96) 1 (0.95–1)
Gentamicin 0 (0–0.37) 1 (0.96–1)
Nalidixic Acid 0.82 (0.63–0.94) 1 (0.95–1)
Sulfamethoxazole 0.67 (0.54–0.78) 0.97 (0.84–1)
Streptomycin 0.92 (0.83–0.97) 0.83 (0.67–0.94)
Sulfisoxazole 0.62 (0.5–0.73) 0.93 (0.77–0.99)
Trimethoprim-Sulfamethoxazole 0.88 (0.72–0.97) 0.96 (0.88–0.99)
Tetracycline 0.95 (0.85–0.99) 0.82 (0.68–0.92)
Trimethoprim 0.94 (0.79–0.99) 0.97 (0.9–1)
Overall 0.83 (0.79–0.86) 0.96 (0.94–0.97)