List of works - Fiona Brinkman

Whole-genome sequencing and social-network analysis of a tuberculosis outbreak

scientific article (publication date: 24 February 2011)

InnateDB: systems biology of innate immunity and beyond--recent updates and continuing curation

scientific article

InnateDB: facilitating systems-level analyses of the mammalian innate immune response.

scientific article

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets

scientific article published on 2 May 2017

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

scientific journal article

Evaluation of genomic island predictors using a comparative genomics approach

scientific article

Detecting genomic islands using bioinformatics approaches

scientific article

Function of pseudomonas porins in uptake and efflux.

scientific article

IslandViewer update: Improved genomic island discovery and visualization.

scientific article published on 15 May 2013

Aminoglycoside efflux in Pseudomonas aeruginosa: involvement of novel outer membrane proteins.

scientific article

Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium

scientific article

Bovine and human cathelicidin cationic host defense peptides similarly suppress transcriptional responses to bacterial lipopolysaccharide.

scientific article published on 30 August 2006

Avian beta-defensin nomenclature: a community proposed update

scientific article published on 23 April 2007

PSORTdb--an expanded, auto-updated, user-friendly protein subcellular localization database for Bacteria and Archaea

scientific article published on November 10, 2010

OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis.

scientific article

Identification of the regulatory logic controlling Salmonella pathoadaptation by the SsrA-SsrB two-component system.

scientific article

Computer-aided biotechnology: from immuno-informatics to reverse vaccinology.

scientific article published on 21 February 2008

SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

scientific article published on 8 June 2017

Genetic and molecular analysis of GogB, a phage-encoded type III-secreted substrate in Salmonella enterica serovar typhimurium with autonomous expression from its associated phage.

scientific article published in May 2005

Evolutionary relationships among virulence-associated histidine kinases

scientific journal article

PSORTdb: expanding the bacteria and archaea protein subcellular localization database to better reflect diversity in cell envelope structures

scientific article

Assessing the precision of high-throughput computational and laboratory approaches for the genome-wide identification of protein subcellular localization in bacteria.

scientific article

The proportional lack of archaeal pathogens: Do viruses/phages hold the key?

scientific article published on February 15, 2011

Genotypes Associated with Listeria monocytogenes Isolates Displaying Impaired or Enhanced Tolerances to Cold, Salt, Acid, or Desiccation Stress

scientific article published on 08 March 2017

MicrobeDB: a locally maintainable database of microbial genomic sequences.

scientific article

Characterization of Legionella Species from Watersheds in British Columbia, Canada

scientific article published on July 2017

Molecular analyses of disease pathogenesis: application of bovine microarrays.

scientific article

Conservation and stewardship of the human microbiome

scientific article published on October 7, 2014

Identification of 526 conserved metazoan genetic innovations exposes a new role for cofactor E-like in neuronal microtubule homeostasis

scientific article

Baseline Practices for the Application of Genomic Data Supporting Regulatory Food Safety

scientific article

Identification of oprG, a gene encoding a major outer membrane protein of Pseudomonas aeruginosa

scientific article published on 01 April 1999

G-protein-coupled receptor independent, immunomodulatory properties of chemokine CXCL9.

scientific article

The OxyR-regulated phnW gene encoding 2-aminoethylphosphonate:pyruvate aminotransferase helps protect Pseudomonas aeruginosa from tert-butyl hydroperoxide

scientific article published on 7 December 2017

Population genomics: modeling the new and a renaissance of the old

scientific article published on 14 October 2008

Disruption of the Gut Microbiota With Antibiotics Exacerbates Acute Vascular Rejection

scientific article published on 10 March 2018

Time course of hepatic gene expression and plasma vitellogenin protein concentrations in estrone-exposed juvenile rainbow trout (Oncorhynchus mykiss)

scientific article published on February 26, 2016

Erratum: Corrigendum: Protein interaction data curation: the International Molecular Exchange (IMEx) consortium

article

Enabling genomic island prediction and comparison in multiple genomes to investigate bacterial evolution and outbreaks

scientific article published in 2022

Bacterial cyclic diguanylate signaling networks sense temperature

scientific article published on 31 March 2021

The Amino Terminus of Outer Membrane Protein OprF Forms Channels in Lipid Bilayer Membranes: Correlation with a Three-Dimensional Model

scientific article published in 2000

Mining the Pseudomonas genome

scientific article

List of works by Fiona Brinkman

Whole-genome sequencing and social-network analysis of a tuberculosis outbreak

InnateDB: systems biology of innate immunity and beyond--recent updates and continuing curation

InnateDB: facilitating systems-level analyses of the mammalian innate immune response.

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets

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

Evaluation of genomic island predictors using a comparative genomics approach

Detecting genomic islands using bioinformatics approaches

Function of pseudomonas porins in uptake and efflux.

IslandViewer update: Improved genomic island discovery and visualization.

Aminoglycoside efflux in Pseudomonas aeruginosa: involvement of novel outer membrane proteins.

Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium

Bovine and human cathelicidin cationic host defense peptides similarly suppress transcriptional responses to bacterial lipopolysaccharide.

Avian beta-defensin nomenclature: a community proposed update

PSORTdb--an expanded, auto-updated, user-friendly protein subcellular localization database for Bacteria and Archaea

OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis.

Identification of the regulatory logic controlling Salmonella pathoadaptation by the SsrA-SsrB two-component system.

Computer-aided biotechnology: from immuno-informatics to reverse vaccinology.

SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

Genetic and molecular analysis of GogB, a phage-encoded type III-secreted substrate in Salmonella enterica serovar typhimurium with autonomous expression from its associated phage.

Evolutionary relationships among virulence-associated histidine kinases

PSORTdb: expanding the bacteria and archaea protein subcellular localization database to better reflect diversity in cell envelope structures

Assessing the precision of high-throughput computational and laboratory approaches for the genome-wide identification of protein subcellular localization in bacteria.

The proportional lack of archaeal pathogens: Do viruses/phages hold the key?

Genotypes Associated with Listeria monocytogenes Isolates Displaying Impaired or Enhanced Tolerances to Cold, Salt, Acid, or Desiccation Stress

MicrobeDB: a locally maintainable database of microbial genomic sequences.

Characterization of Legionella Species from Watersheds in British Columbia, Canada

Molecular analyses of disease pathogenesis: application of bovine microarrays.

Conservation and stewardship of the human microbiome

Identification of 526 conserved metazoan genetic innovations exposes a new role for cofactor E-like in neuronal microtubule homeostasis

Baseline Practices for the Application of Genomic Data Supporting Regulatory Food Safety

Identification of oprG, a gene encoding a major outer membrane protein of Pseudomonas aeruginosa

G-protein-coupled receptor independent, immunomodulatory properties of chemokine CXCL9.

The OxyR-regulated phnW gene encoding 2-aminoethylphosphonate:pyruvate aminotransferase helps protect Pseudomonas aeruginosa from tert-butyl hydroperoxide

Population genomics: modeling the new and a renaissance of the old

Disruption of the Gut Microbiota With Antibiotics Exacerbates Acute Vascular Rejection

Time course of hepatic gene expression and plasma vitellogenin protein concentrations in estrone-exposed juvenile rainbow trout (Oncorhynchus mykiss)

Erratum: Corrigendum: Protein interaction data curation: the International Molecular Exchange (IMEx) consortium

Enabling genomic island prediction and comparison in multiple genomes to investigate bacterial evolution and outbreaks

Bacterial cyclic diguanylate signaling networks sense temperature

The Amino Terminus of Outer Membrane Protein OprF Forms Channels in Lipid Bilayer Membranes: Correlation with a Three-Dimensional Model

Mining the Pseudomonas genome