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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