2025
Classification of unsequenced Mycobacterium tuberculosis strains in a high-burden setting using a pairwise logistic regression approach
Rancu I, Sobkowiak B, Warren J, Ciobanu N, Codreanu A, Crudu V, Colijn C, Cohen T, Chitwood M. Classification of unsequenced Mycobacterium tuberculosis strains in a high-burden setting using a pairwise logistic regression approach. Access Microbiology 2025, 7: 000964.v3. PMID: 40519974, PMCID: PMC12163731, DOI: 10.1099/acmi.0.000964.v3.Peer-Reviewed Original ResearchWhole-genome sequencing dataSequence dataTransmission inferenceMolecular epidemiological studiesMycobacterium tuberculosis strainsTuberculosis strainsHigh-burden settingsFraction of individualsCulture-positive diseaseStrainTransmission clustersFraction of casesLow-burden settingsSNPsForeign-born migrantsTransmission dynamicsSequenceTuberculosis casesMycobacteriaClustersNotified tuberculosisIntegrating genomic and spatial analyses to describe tuberculosis transmission: a scoping review
Lan Y, Rancu I, Chitwood M, Sobkowiak B, Nyhan K, Lin H, Wu C, Mathema B, Brown T, Colijn C, Warren J, Cohen T. Integrating genomic and spatial analyses to describe tuberculosis transmission: a scoping review. The Lancet Microbe 2025, 101094. PMID: 40228509, DOI: 10.1016/j.lanmic.2025.101094.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsGenome sequencing approachGenetic similarityGenomic dataSequencing approachGenotyping methodsPathogen geneticsGenetic methodsPathogen sequencesSampling completenessTuberculosis isolatesTransmission patternsTuberculosis casesPathogensTuberculosis transmissionM tuberculosis isolatesInfection-related mortalityEnvironmental factorsTuberculosis transmission dynamicsSpatial proximityTransmission clustersGenomeSpatial patternsTuberculosisTransmission dynamicsGenetics
2023
Global, regional, and national estimates of tuberculosis incidence and case detection among incarcerated individuals from 2000 to 2019: a systematic analysis
Martinez L, Warren J, Harries A, Croda J, Espinal M, Olarte R, Avedillo P, Lienhardt C, Bhatia V, Liu Q, Chakaya J, Denholm J, Lin Y, Kawatsu L, Zhu L, Horsburgh C, Cohen T, Andrews J. Global, regional, and national estimates of tuberculosis incidence and case detection among incarcerated individuals from 2000 to 2019: a systematic analysis. The Lancet Public Health 2023, 8: e511-e519. PMID: 37393090, PMCID: PMC10323309, DOI: 10.1016/s2468-2667(23)00097-x.Peer-Reviewed Original ResearchConceptsTuberculosis incidenceCase detection ratioIncidence rateCase detectionHigh tuberculosis incidence ratesGlobal tuberculosis control effortsIncident tuberculosis casesTuberculosis incidence rateIncarcerated individualsTuberculosis control effortsTuberculosis case detectionTuberculosis casesNotification ratesNational incidenceTuberculosis notificationsGlobal incidenceHigh riskPrevalence estimatesNational estimatesWHO regionsIncidenceStudy periodMeta-regression frameworkTuberculosisNational Institute
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