Resistance Sniffer: An online tool for prediction of drug resistance patterns of Mycobacterium tuberculosis isolates using next generation sequencing data
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Abbreviations
AMK
amikacin
CM
capreomycin
CS
cycloserin
DR-TB
drug resistant tuberculosis
DST
drug susceptibility testing
EMB
ethambutol
ETH
ethionamide
FLQ
fluoroquinolones
FN
false negative
FP
false positive
GMTV
Genome Variation Mycobacterium Tuberculosis Variation database
GWAS
genome wide association studies
INH
isoniazid
KAN
kanamycin
MDR-TB
multidrug resistant tuberculosis
Mtb
Mycobacterium tuberculosis
NGS
next generation sequencing
NPV
Negative Predictive Value
OFL
ofloxacin
PAS
para-amino salicyclic acid
PATRIC
Pathosystems Resource Integration Center
PPV
Positive Predictive Value
PZA
pyrazinamide
RIF
rifampicin
RR
TB -rifampicin resistant tuberculosis
SAMRC
South African Medical Research Council
SENS
sensitivity
SM
streptomycin
SPEC
specificity
TB
tuberculosis
TDR-TB
totally drug resistant tuberculosis
TN
true negative
TP
true positive
VCF
variant call format
XDR-TB
extensive drug resistant tuberculosis
Keywords
Mycobacterium tuberculosis
Antibiotic
Resistance
Whole-genome sequencing
Clade specific
Single nucleotide polymorphism
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© 2020 The Authors. Published by Elsevier GmbH.