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Table 3 The in-silico profiling results for isolates sequenced using MinION

From: Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs

Samples* Method RIF INH EMB PYR STR ETH AMK CAP FLQ PAS
por5 DST R R R R R R S S S S
  TBProfiler R R R R R R S S S S
  Mykrobe** R R R 82%R R – S S S –
por6 DST R R R R R R R R R S
  TBProfiler R R R R R R R R R S
  Mykrobe R R R R R – 82%R 82%R R –
por7 DST R R R R R R R R R S
  TBProfiler R R R R R R S S R S
  Mykrobe R 92%R S R 83%R – S S 91%R –
  1. DST drug susceptibility testing (R resistant, S sensitive); this table shows the percentage of replicates producing the correct result; − cannot be determined; bolded values indicate the % of replicates with DST phenotypes, where resistance mutations are not found in all replicates. Underlined values indicate where the variant is not present in software mutation library; RIF rifampicin, INH isoniazid, EMB ethambutol, PYR pyrazinamide, STR streptomycin, ETH ethionamide, AMK amikacin, CAP capreomycin, FLQ fluoroquinolones, PAS para-aminosalicylic acid. *All LAM4 strain-types or sub-lineage 4.3.4.2. **Mykrobe-Profiler TB (https://github.com/iqbal-lab/Mykrobe-predictor) implemented using its command-line version
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Genome Medicine

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