Integrated genomic and interfacility patient-transfer data reveal the transmission pathways of multidrug-resistant Klebsiella pneumoniae in a regional outbreak

Genomic and Epidemiological Evidence for Community Origins of Hospital-Onset Methicillin-Resistant Staphylococcus aureus Bloodstream Infections

(2017) Kyle J. Popovich et al.   JOURNAL OF INFECTIOUS DISEASES

Spread of Carbapenem-ResistantEnterobacteriaceaeAmong Illinois Healthcare Facilities: The Role of Patient Sharing

(2016) Michael J. Ray et al.   CLINICAL INFECTIOUS DISEASES

Identifying the effect of patient sharing on between-hospital genetic differentiation of methicillin-resistant Staphylococcus aureus

(2016) Hsiao-Han Chang et al.   Genome Medicine

Use of whole-genome sequencing to trace, control and characterize the regional expansion of extended-spectrum β-lactamase producing ST15 Klebsiella pneumoniae

(2016) Kai Zhou et al.   Scientific Reports

Vital Signs: Estimated Effects of a Coordinated Approach for Action to Reduce Antibiotic-Resistant Infections in Health Care Facilities — United States

(2015) Rachel B. Slayton et al.   MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT

A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data

(2014) David Coil et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

A National Intervention to Prevent the Spread of Carbapenem-Resistant Enterobacteriaceae in Israeli Post-Acute Care Hospitals

(2014) Debby Ben-David et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

(2014) Nicholas J. Croucher et al.   NUCLEIC ACIDS RESEARCH

Efficient surveillance for healthcare-associated infections spreading between hospitals

(2014) Mariano Ciccolini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

An Ongoing National Intervention to Contain the Spread of Carbapenem-Resistant Enterobacteriaceae

(2013) M. J. Schwaber et al.   CLINICAL INFECTIOUS DISEASES

A genomic portrait of the emergence, evolution, and global spread of a methicillin-resistant Staphylococcus aureus pandemic

(2013) M. T. G. Holden et al.   GENOME RESEARCH

Infection prevention in a connected world: The case for a regional approach

(2013) Mariano Ciccolini et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Antimicrobial resistance: a global view from the 2013 World Healthcare-Associated Infections Forum

(2013) Angela Huttner et al.   Antimicrobial Resistance and Infection Control

Hospital Networks and the Dispersal of Hospital-Acquired Pathogens by Patient Transfer

(2012) Tjibbe Donker et al.   PLoS One

Patient sharing and population genetic structure of methicillin-resistant Staphylococcus aureus

(2012) W. Ke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Emergence and Rapid Regional Spread of Klebsiella pneumoniae Carbapenemase-Producing Enterobacteriaceae

(2011) S. Y. Won et al.   CLINICAL INFECTIOUS DISEASES

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Patient Referral Patterns and the Spread of Hospital-Acquired Infections through National Health Care Networks

(2010) Tjibbe Donker et al.   PLoS Computational Biology

Antimicrobial Resistance:Acinetobacter baumannii:Epidemiology, Antimicrobial Resistance, and Treatment Options

(2008) Lisa L. Maragakis et al.   CLINICAL INFECTIOUS DISEASES

Bad Bugs, No Drugs: No ESKAPE! An Update from the Infectious Diseases Society of America

(2008) Helen W. Boucher et al.   CLINICAL INFECTIOUS DISEASES