Interclonal gradient of virulence in thePseudomonas aeruginosapangenome from disease and environment

ReadXplorer—visualization and analysis of mapped sequences

(2014) Rolf Hilker et al.   BIOINFORMATICS

Intraclonal genome diversity of Pseudomonas aeruginosa clones CHA and TB

(2013) Oliver KI Bezuidt et al.   BMC GENOMICS

Pouring Salt on a Wound: Pseudomonas aeruginosa Virulence Factors Alter Na+ and Cl- Flux in the Lung

(2013) A. E. Ballok et al.   JOURNAL OF BACTERIOLOGY

Pseudomonas aeruginosaCif Protein Enhances the Ubiquitination and Proteasomal Degradation of the Transporter Associated with Antigen Processing (TAP) and Reduces Major Histocompatibility Complex (MHC) Class I Antigen Presentation

(2013) Jennifer M. Bomberger et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Differential Potentiation of the Virulence of the Pseudomonas aeruginosa Cystic Fibrosis Liverpool Epidemic Strain by Oral Commensal Streptococci

(2013) Robert A. Whiley et al.   JOURNAL OF INFECTIOUS DISEASES

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Pseudomonas aeruginosa population structure revisited under environmental focus: impact of water quality and phage pressure

(2012) Katherina Selezska et al.   ENVIRONMENTAL MICROBIOLOGY

The peptide chain release factor methyltransferase PrmC is essential for pathogenicity and environmental adaptation ofPseudomonas aeruginosaPA14

(2012) Christian Pustelny et al.   ENVIRONMENTAL MICROBIOLOGY

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Bacteriophage genes that inactivate the CRISPR/Cas bacterial immune system

(2012) Joe Bondy-Denomy et al.   NATURE

Molecular Epidemiology of Chronic Pseudomonas aeruginosa Airway Infections in Cystic Fibrosis

(2012) Nina Cramer et al.   PLoS One

Evolution of microbes and viruses: a paradigm shift in evolutionary biology?

(2012) Eugene V. Koonin et al.   Frontiers in Cellular and Infection Microbiology

Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming

(2011) Jochen Blom et al.   BIOINFORMATICS

Lung function and inflammation during murine Pseudomonas aeruginosa airway infection

(2011) Florian Wölbeling et al.   IMMUNOBIOLOGY

In-Vivo Expression Profiling of Pseudomonas aeruginosa Infections Reveals Niche-Specific and Strain-Independent Transcriptional Programs

(2011) Piotr Bielecki et al.   PLoS One

Pseudomonas aeruginosa Genomic Structure and Diversity

(2011) Jens Klockgether et al.   Frontiers in Microbiology

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

Identification of the Biosynthetic Gene Cluster for the Pseudomonas aeruginosa Antimetabolite L-2-Amino-4-Methoxy-trans-3-Butenoic Acid

(2010) X. Lee et al.   JOURNAL OF BACTERIOLOGY

Plant Immunity Triggered by Microbial Molecular Signatures

(2010) Jie Zhang et al.   Molecular Plant

Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes

(2010) G. L. Winsor et al.   NUCLEIC ACIDS RESEARCH

r2cat: synteny plots and comparative assembly

(2009) P. Husemann et al.   BIOINFORMATICS

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

EDGAR: A software framework for the comparative analysis of prokaryotic genomes

(2009) Jochen Blom et al.   BMC BIOINFORMATICS

The sensor kinase PhoQ mediates virulence in Pseudomonas aeruginosa

(2009) W. J. Gooderham et al.   MICROBIOLOGY-SGM

Modeling Pseudomonas aeruginosa pathogenesis in plant hosts

(2009) Melissa Starkey et al.   Nature Protocols

Pseudomonas aeruginosa Population Structure Revisited

(2009) Jean-Paul Pirnay et al.   PLoS One

Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa

(2008) C. Winstanley et al.   GENOME RESEARCH

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

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

Multiple roles ofPseudomonas aeruginosaTBCF10839 PilY1 in motility, transport and infection

(2008) Yu-Sing Tammy Bohn et al.   MOLECULAR MICROBIOLOGY

Dynamics of Pseudomonas aeruginosa genome evolution

(2008) K. Mathee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA