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, 6: 101094. PMID: 40228509, PMCID: PMC12371702, 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
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