Genomic analysis of the emergence of 20th century epidemic dysentery

Progress and pitfalls in Shigella vaccine research

(2013) Eileen M. Barry et al.   Nature Reviews Gastroenterology & Hepatology

Lipidomic profiling of bioactive lipids by mass spectrometry during microbial infections

(2013) Vincent C. Tam   SEMINARS IN IMMUNOLOGY

Impact of homologous and non-homologous recombination in the genomic evolution of Escherichia coli

(2012) Xavier Didelot et al.   BMC GENOMICS

Factors That Explain Excretion of Enteric Pathogens by Persons Without Diarrhea

(2012) Myron M. Levine et al.   CLINICAL INFECTIOUS DISEASES

Antivirulence Genes: Insights into Pathogen Evolution through Gene Loss

(2012) Kimberly A. Bliven et al.   INFECTION AND IMMUNITY

Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics

(2012) Guy Baele et al.   MOLECULAR BIOLOGY AND EVOLUTION

Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa

(2012) Chinyere K Okoro et al.   NATURE GENETICS

Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe

(2012) Kathryn E Holt et al.   NATURE GENETICS

Evolution of Burkholderia pseudomallei in Recurrent Melioidosis

(2012) Hillary S. Hayden et al.   PLoS One

PGAT: a multistrain analysis resource for microbial genomes

(2011) M. J. Brittnacher et al.   BIOINFORMATICS

Complete Sequences of Plasmids from the Hemolytic-Uremic Syndrome-Associated Escherichia coli Strain HUSEC41

(2011) C. Kunne et al.   JOURNAL OF BACTERIOLOGY

Temporal Fluctuation of Multidrug Resistant Salmonella Typhi Haplotypes in the Mekong River Delta Region of Vietnam

(2011) Kathryn E. Holt et al.   PLoS Neglected Tropical Diseases

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Emergence of a New Multidrug-Resistant Serotype X Variant in an Epidemic Clone of Shigella flexneri

(2009) C. Ye et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths

(2009) Marie Touchon et al.   PLoS Genetics

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Smooth Skyride through a Rough Skyline: Bayesian Coalescent-Based Inference of Population Dynamics

(2008) V. N. Minin et al.   MOLECULAR BIOLOGY AND EVOLUTION

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi

(2008) Kathryn E Holt et al.   NATURE GENETICS

Risk areas and neighborhood-level risk factors for Shigella dysenteriae 1 and Shigella flexneri

(2007) Michael Emch et al.   HEALTH & PLACE