Whole genome sequencing of drug resistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of North West Pakistan

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

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

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Use of an immunochromatographic assay for rapid identification of Mycobacterium tuberculosis complex clinical isolates in routine diagnosis

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Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

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World Health Organization treatment guidelines for drug-resistant tuberculosis, 2016 update

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Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance

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Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan

(2017) Akbar Kanji et al.   TUBERCULOSIS

Current updates in tuberculosis

(2017) Gyanshankar Mishra   npj Primary Care Respiratory Medicine

Molecular analysis of genetic mutations among cross-resistant second-line injectable drugs reveals a new resistant mutation in Mycobacterium tuberculosis

(2016) Lesibana Malinga et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Use of Xpert® MTB/RIF assay in the first national anti-tuberculosis drug resistance survey in Pakistan

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PhyTB: Phylogenetic tree visualisation and sample positioning for M. tuberculosis

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Clinical Application of Whole-Genome Sequencing To Inform Treatment for Multidrug-Resistant Tuberculosis Cases

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National tuberculosis prevalence surveys in Asia, 1990-2012: an overview of results and lessons learned

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Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences

(2015) Francesc Coll et al.   Genome Medicine

Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area

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Whole Genome Sequencing Based Characterization of Extensively Drug-Resistant Mycobacterium tuberculosis Isolates from Pakistan

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Trimmomatic: a flexible trimmer for Illumina sequence data

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RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Unraveling Mycobacterium tuberculosis genomic diversity and evolution in Lisbon, Portugal, a highly drug resistant setting

(2014) João Perdigão et al.   BMC GENOMICS

A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

(2014) Francesc Coll et al.   Nature Communications

SpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences

(2012) Francesc Coll et al.   BIOINFORMATICS

Resistance to fluoroquinolones and second-line injectable drugs: impact on multidrug-resistant TB outcomes

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Host-pathogen coevolution in human tuberculosis

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Mycobacterium tuberculosis embBCodon 306 Mutations Confer Moderately Increased Resistance to Ethambutol In Vitro and In Vivo

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A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

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Multidrug-resistant and extensively drug-resistant tuberculosis: a threat to global control of tuberculosis

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Genotyping and drug resistance patterns of M. tuberculosis strains in Pakistan

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