2018
Internal migration and transmission dynamics of tuberculosis in Shanghai, China: an epidemiological, spatial, genomic analysis
Yang C, Lu L, Warren JL, Wu J, Jiang Q, Zuo T, Gan M, Liu M, Liu Q, DeRiemer K, Hong J, Shen X, Colijn C, Guo X, Gao Q, Cohen T. Internal migration and transmission dynamics of tuberculosis in Shanghai, China: an epidemiological, spatial, genomic analysis. The Lancet Infectious Diseases 2018, 18: 788-795. PMID: 29681517, PMCID: PMC6035060, DOI: 10.1016/s1473-3099(18)30218-4.Peer-Reviewed Original ResearchMeSH KeywordsAdultAgedAged, 80 and overChinaDisease Transmission, InfectiousFemaleGenotypeHumansMaleMiddle AgedMinisatellite RepeatsMolecular EpidemiologyMycobacterium tuberculosisPolymorphism, Single NucleotideRural PopulationSpatial AnalysisTransients and MigrantsTuberculosisUrban PopulationWhole Genome SequencingConceptsM tuberculosisEpidemiological dataSingle nucleotide polymorphismsCulture-positive Mycobacterium tuberculosis isolatesCulture-positive tuberculosisPopulation-based studyMycobacterium tuberculosis isolatesTransmission dynamicsTime of infectionDynamics of tuberculosisTuberculosis controlUS National InstitutesTuberculosis isolatesMore effective interventionsProximity of residenceRecent transmissionPatient's homeTuberculosisLocal transmission dynamicsEffective interventionsLocal transmissionLocal incidenceNational InstituteVNTR patternsWhole-genome sequencing
2016
Rapid Drug Susceptibility Testing of Drug-Resistant Mycobacterium tuberculosis Isolates Directly from Clinical Samples by Use of Amplicon Sequencing: a Proof-of-Concept Study
Colman RE, Anderson J, Lemmer D, Lehmkuhl E, Georghiou SB, Heaton H, Wiggins K, Gillece JD, Schupp JM, Catanzaro DG, Crudu V, Cohen T, Rodwell TC, Engelthaler DM. Rapid Drug Susceptibility Testing of Drug-Resistant Mycobacterium tuberculosis Isolates Directly from Clinical Samples by Use of Amplicon Sequencing: a Proof-of-Concept Study. Journal Of Clinical Microbiology 2016, 54: 2058-2067. PMID: 27225403, PMCID: PMC4963505, DOI: 10.1128/jcm.00535-16.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentAdultAgedAged, 80 and overChildChild, PreschoolFemaleGenotyping TechniquesHigh-Throughput Nucleotide SequencingHumansMaleMicrobial Sensitivity TestsMiddle AgedMycobacterium tuberculosisPharmaceutical PreparationsPilot ProjectsSequence Analysis, DNASpecimen HandlingSputumTime FactorsYoung AdultConceptsDrug-resistant tuberculosisPatient sputum samplesDrug resistance profilesSputum samplesDrug-resistant Mycobacterium tuberculosis isolatesPhenotypic drug susceptibility testing resultsDrug susceptibility testing resultsEvidence-based treatment plansResistance profilesMajor global health concernRapid drug susceptibility testingMycobacterium tuberculosis isolatesNext-generation sequencingClinical samplesAmplification of resistanceDrug susceptibility testingTargeted Next-Generation SequencingMycobacterium tuberculosis DNAGlobal health concernSusceptibility testing resultsSame clinical samplePhenotypic DSTInfectious causesTreatment outcomesTuberculosis isolates
2013
Evaluation of the Tuberculosis Strain Typing Service (TB-STS) in England
Mears J, Vynnycky E, Lord J, Borgdorff M, Cohen T, Abubakar I, Sonnenberg P, group O. Evaluation of the Tuberculosis Strain Typing Service (TB-STS) in England. The Lancet 2013, 382: s73. DOI: 10.1016/s0140-6736(13)62498-8.Peer-Reviewed Original ResearchTuberculosis incidenceProportion of infectionsDiagnostic delayBase-case assumptionsLatent infectionPulmonary tuberculosis casesTuberculosis control effortsHigh-incidence settingsMycobacterium tuberculosis isolatesCluster investigationsTuberculosis notification ratesPost-implementation dataComplex public health interventionsPopulation-level interventionsPublic health interventionsMIRU-VNTR typingTuberculosis infectionTuberculosis casesPreventive treatmentPublic health outcomesNotification ratesTuberculosis isolatesSenior Research FellowshipDeterministic compartmental modelProportion of individualsBayesian Estimation of Mixture Models with Prespecified Elements to Compare Drug Resistance in Treatment-Naïve and Experienced Tuberculosis Cases
Izu A, Cohen T, DeGruttola V. Bayesian Estimation of Mixture Models with Prespecified Elements to Compare Drug Resistance in Treatment-Naïve and Experienced Tuberculosis Cases. PLOS Computational Biology 2013, 9: e1002973. PMID: 23555210, PMCID: PMC3605089, DOI: 10.1371/journal.pcbi.1002973.Peer-Reviewed Original ResearchConceptsTreatment-experienced patientsDrug-resistant strainsMultiple drug-resistant strainsTreatment-naïve patientsDrug-resistant tuberculosisMycobacterium tuberculosis isolatesWorld Health OrganizationDrug resistance pathwaysTreatment-naïveTuberculosis casesTuberculosis isolatesWorldwide surveillanceDrug resistancePatientsHealth OrganizationResistant strainsResistant pathogensResistance pathwaysLow transmissibilityPathwayTuberculosis