regentrans

regentrans analyzes whole-genome sequencing data to investigate regional transmission dynamics of multidrug-resistant organisms (MDROs) across and within healthcare facilities.

Key Features:

• Whole-Genome Sequencing Integration: Uses whole-genome sequencing data to resolve transmission links between isolates.
• Genomic Analysis: Applies bioinformatics techniques to identify genetic similarities and differences among isolates indicative of transmission.
• Temporal and Spatial Analysis: Enables examination of transmission dynamics over time and across healthcare facilities to distinguish inter-facility and intra-facility spread.
• Transmission Dynamics Modeling: Employs statistical models to map pathways of pathogen spread within and between healthcare settings.
• Comprehensive Dataset Support: Capable of analyzing large-scale datasets such as over 400 carbapenem-resistant Klebsiella pneumoniae isolates collected from multiple long-term acute care hospitals.

Scientific Applications:

• Genomic epidemiology: Investigates regional spread and transmission networks of MDROs using genomic data.
• Transmission network identification: Identifies inter-facility and intra-facility transmission events and potential drivers of regional prevalence.
• Informing interventions: Provides genomic evidence to inform coordinated interventions in healthcare settings.

Methodology:

Data collection of whole-genome sequencing data from pathogens across facilities; genomic analysis using bioinformatics techniques to identify genetic similarities and differences among isolates; and transmission dynamics modeling using statistical models to map pathways of spread.