16 Result(s)
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Fiona S. L. Brinkman
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Article
Open AccessThe use of prescription medications and non-prescription medications during lactation in a prospective Canadian cohort study
A lack of safety data on postpartum medication use presents a potential barrier to breastfeeding and may result in infant exposure to medications in breastmilk. The type and extent of medication use by lactati...
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Article
Open AccessBacterial cyclic diguanylate signaling networks sense temperature
Many bacteria use the second messenger cyclic diguanylate (c-di-GMP) to control motility, biofilm production and virulence. Here, we identify a thermosensory diguanylate cyclase (TdcA) that modulates temperatu...
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Article
Open AccessFoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration
The construction of high capacity data sharing networks to support increasing government and commercial data exchange has highlighted a key roadblock: the content of existing Internet-connected information rem...
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Article
Open AccessHigh-throughput detection of RNA processing in bacteria
Understanding the RNA processing of an organism’s transcriptome is an essential but challenging step in understanding its biology. Here we investigate with unprecedented detail the transcriptome of Pseudomonas ae...
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Article
Open AccessA comprehensive method for amplicon-based and metagenomic characterization of viruses, bacteria, and eukaryotes in freshwater samples
Studies of environmental microbiota typically target only specific groups of microorganisms, with most focusing on bacteria through taxonomic classification of 16S rRNA gene sequences. For a more holistic unde...
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Open AccessEvaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities
The field of metagenomics (study of genetic material recovered directly from an environment) has grown rapidly, with many bioinformatics analysis methods being developed. To ensure appropriate use of such meth...
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Mining the Pseudomonas Genome
Pseudomonas species were targeted early for genomic studies since they were noted for their diverse metabolic capacity, ability to inhabit a wide range of environments and hosts, and include notable human and ag...
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Chapter
Computational Prediction of Protein Subcellular Localization, Genomic Islands, and Virulence to Aid Antigen Discovery
Subunits of bacterial proteins involved in virulence, as well as bacterial cell surface and secreted proteins, may be prioritized as potential vaccine components warranting further study. Computational predict...
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Article
Protein interaction data curation: the International Molecular Exchange (IMEx) consortium
Presented is an update on the status and current practices of the International Molecular Exchange (IMEx) consortium and on its efforts to create a single nonredundant set of protein interactions curated from ...
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Article
PSICQUIC and PSISCORE: accessing and scoring molecular interactions
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Article
Detecting genomic islands using bioinformatics approaches
Genomic islands (GIs) are large genomic regions (typically 10–200 kb in length) that are found in bacterial genomes and that have probably been horizontally ac...
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Chapter
Systems-Level Analyses of the Mammalian Innate Immune Response
The regulation of the innate immune response, our first line of defence against infectious disease, does not involve simple linear pathways but rather complex inter-connected networks of interactions, regulato...
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Article
Erratum: Methods for predicting bacterial protein subcellular localization
Nature Reviews Microbiology 4, 741–751 (2006) In the above article, there was an error in the true negative (TN) values provided in Table 2 for the PSORTb and Proteome Analyst programs. This error had no impac...
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Methods for predicting bacterial protein subcellular localization
The prediction of a bacterial protein's subcellular localization can be of considerable aid to microbiological research. It can be used to infer potential func...
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Chapter
The Pseudomonas Genome Database
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Article
Sequencing solution: use volunteer annotators organized via Internet
