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Author Details

Fiona S L Brinkman
Simon Fraser University
1995
123
59
PMIDPaper TitleJournal TitlePublished Year
36263822CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database.Nucleic Acids Res2023
36750286Canadians' opinions towards COVID-19 data-sharing: a national cross-sectional survey.BMJ Open2023
36698766GlobeCorr: interactive globe-based visualization for correlation datasets.Bioinform Adv2023
36628845Pathogen-associated gene discovery workflows for novel antivirulence therapeutic development.EBioMedicine2023
35196314Similarities between bacterial GAD and human GAD65: Implications in gut mediated autoimmune type 1 diabetes.PLoS One2022
35584003Enabling genomic island prediction and comparison in multiple genomes to investigate bacterial evolution and outbreaks.Microb Genom2022
35401651Addressing Privacy Concerns in Sharing Viral Sequences and Minimum Contextual Data in a Public Repository During the COVID-19 Pandemic.Front Genet2022
35485447Dysbiosis of the Female Murine Gut Microbiome Exacerbates Neutrophil-mediated Vascular Allograft Injury by Affecting Immunoregulation by Acetate.Transplantation2022
36129737Exploring the mobilome and resistome of <i>Enterococcus faecium</i> in a One Health context across two continents.Microb Genom2022
36291411From Prescription Drugs to Natural Health Products: Medication Use in Canadian Infants.Children (Basel)2022
33313828PSORTdb 4.0: expanded and redesigned bacterial and archaeal protein subcellular localization database incorporating new secondary localizations.Nucleic Acids Res2021
33790266Bacterial cyclic diguanylate signaling networks sense temperature.Nat Commun2021
34836612The Pseudomonas aeruginosa whole genome sequence: A 20th anniversary celebration.Adv Microb Physiol2021
34076041Transcriptome comparison of dengue-susceptible and -resistant field derived strains of Colombian Aedes aegypti using RNA-sequencing.Mem Inst Oswaldo Cruz2021
34060330Composition and Associations of the Infant Gut Fungal Microbiota with Environmental Factors and Childhood Allergic Outcomes.mBio2021
32108861PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data.Bioinformatics2020
31665441CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database.Nucleic Acids Res2020
32071223AB569, a nontoxic chemical tandem that kills major human pathogenic bacteria.Proc Natl Acad Sci U S A2020
33001022Metagenome-assembled genome binning methods with short reads disproportionately fail for plasmids and genomic Islands.Microb Genom2020
31601655Eleven High-Quality Reference Genome Sequences and 360 Draft Assemblies of Shiga Toxin-Producing Escherichia coli Isolates from Human, Food, Animal, and Environmental Sources in Canada.Microbiol Resour Announc2019
29868902Microbial genomic island discovery, visualization and analysis.Brief Bioinform2019
29538261Disruption of the Gut Microbiota With Antibiotics Exacerbates Acute Vascular Rejection.Transplantation2018
29905770Improved genomic island predictions with IslandPath-DIMOB.Bioinformatics2018
29897457Genomic characterisation of an international Pseudomonas aeruginosa reference panel indicates that the two major groups draw upon distinct mobile gene pools.FEMS Microbiol Lett2018
31304272FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration.NPJ Sci Food2018
29587634High-throughput detection of RNA processing in bacteria.BMC Genomics2018
27789705CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database.Nucleic Acids Res2017
28283098From bugs to brains: The microbiome in neurological health.Mult Scler Relat Disord2017
28337186Genotypes Associated with <i>Listeria monocytogenes</i> Isolates Displaying Impaired or Enhanced Tolerances to Cold, Salt, Acid, or Desiccation Stress.Front Microbiol2017
28105974Baseline Practices for the Application of Genomic Data Supporting Regulatory Food Safety.J AOAC Int2017
28472413IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets.Nucleic Acids Res2017
29026651SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology.Microb Genom2017
29216242The OxyR-regulated phnW gene encoding 2-aminoethylphosphonate:pyruvate aminotransferase helps protect Pseudomonas aeruginosa from tert-butyl hydroperoxide.PLoS One2017
28776042Characterization of <i>Legionella</i> Species from Watersheds in British Columbia, Canada.mSphere2017
28694792Context Is Everything: Harmonization of Critical Food Microbiology Descriptors and Metadata for Improved Food Safety and Surveillance.Front Microbiol2017
26996967Time course of hepatic gene expression and plasma vitellogenin protein concentrations in estrone-exposed juvenile rainbow trout (Oncorhynchus mykiss).Comp Biochem Physiol Part D Genomics Proteomics2016
26602691PSORTdb: expanding the bacteria and archaea protein subcellular localization database to better reflect diversity in cell envelope structures.Nucleic Acids Res2016
26578582Enhanced annotations and features for comparing thousands of Pseudomonas genomes in the Pseudomonas genome database.Nucleic Acids Res2016
27366170Genomic Analysis of a Serotype 5 Streptococcus pneumoniae Outbreak in British Columbia, Canada, 2005-2009.Can J Infect Dis Med Microbiol2016
27391119A comprehensive method for amplicon-based and metagenomic characterization of viruses, bacteria, and eukaryotes in freshwater samples.Microbiome2016
25953080CerebralWeb: a Cytoscape.js plug-in to visualize networks stratified by subcellular localization.Database (Oxford)2015
26483767Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium.Front Microbiol2015
26537885Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities.BMC Bioinformatics2015
26733955Year-Long Metagenomic Study of River Microbiomes Across Land Use and Water Quality.Front Microbiol2015
26093150GenomeD3Plot: a library for rich, interactive visualizations of genomic data in web applications.Bioinformatics2015
25916842IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis.Nucleic Acids Res2015
24907240Genes, the environment and personalized medicine: We need to harness both environmental and genetic data to maximize personal and population health.EMBO Rep2014
25285128Personalized genetic testing and norovirus susceptibility.Can J Infect Dis Med Microbiol2014
25294925Opinion: Conservation and stewardship of the human microbiome.Proc Natl Acad Sci U S A2014
24818923Mining the Pseudomonas genome.Methods Mol Biol2014
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Collaborators

University of British Columbia
Co-authored papers 35
European Bioinformatics Institute
Co-authored papers 16
Dalhousie University
Co-authored papers 11
South Australian Health and Medical Research Institute
Co-authored papers 11
University of British Columbia
Co-authored papers 9
Smurfit Institute of Genetics, Trinity College of Dublin
Co-authored papers 7
Harvard T.H. Chan School of Public Health
Co-authored papers 5
Simon Fraser University
Co-authored papers 5
BC Cancer Research Institute
Co-authored papers 4
Canada British Columbia Cancer Research Centre, University of British Columbia
Co-authored papers 3
University of British Columbia
Co-authored papers 3
Simon Fraser University
Co-authored papers 2
Ontario Institute for Cancer Research
Co-authored papers 2
McGill University
Co-authored papers 2
Co-authored papers 2
Simon Fraser University
Co-authored papers 2
Department of Research and Development, Inc.
Co-authored papers 2
McGill University.
Co-authored papers 2
McLean Hospital
Co-authored papers 1
The University of Melbourne
Co-authored papers 1
National Center for Toxicological Research
Co-authored papers 1
National Center for Biotechnology Information, National Institutes of Health
Co-authored papers 1
University of California San Francisco
Co-authored papers 1
University of Illinois at Chicago
Co-authored papers 1
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 1
Baylor College of Medicine
Co-authored papers 1
Baylor College of Medicine
Co-authored papers 1
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Baylor College of Medicine
Co-authored papers 1
Eastern Cereal and Oilseed Research Centre, Agriculture and Agri-Food Canada
Co-authored papers 1