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Michael G. DeGroote Institute for Infectious Disease Research, McMaster University

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antibiotic resistance genomics publications

Capturing the antibiotic resistome of preterm infants reveals new benefits of probiotic supplementation

August 26, 2022September 8, 2022 agmcarthur

Guitor et al. 2022. Microbiome 10(1):136. Background: Probiotic use in preterm infants can mitigate the impact of antibiotic exposure and reduce rates of certain illnesses;

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Summer Conferences 2022

July 2, 2022July 2, 2022 agmcarthur

(presenters in bold; lab members underlined) Baker, S.J.C., S. Yaqoob, M.-T. Usuanlele, J. Gilchrist, M. Smieja, M. Loeb, S. Khan, J. Pernica, M.G. Surette, A.G.

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The Dataharmonizer: a Tool for Faster Data Harmonization, Validation, Aggregation, and Analysis of Pathogen Genomics Contextual Information

June 24, 2022June 24, 2022 agmcarthur

Gill et al. 2022. Preprints 10.20944/preprints202206.0335.v1 Pathogen genomics is a critical tool for public health surveillance, infection control, outbreak investigations, as well as research. In

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antibiotic resistance big data bioinformatics genomics publications

Datasets for benchmarking antimicrobial resistance genes in bacterial metagenomic and whole genome sequencing

June 15, 2022June 15, 2022 agmcarthur

Raphenya et al. Scientific Data volume 9, Article number: 341 (2022). Whole genome sequencing (WGS) is a key tool in identifying and characterising disease-associated bacteria

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antibiotic resistance genomes genomics

MACGENOM Survey Results

June 14, 2022June 14, 2022 Mugdha Dave

The burden of drug-resistant infections continues to threaten our arsenal of antibiotics. Despite the rise in genomic sequencing of clinical isolates, there is a lack

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antibiotic resistance bioinformatics genomics publications

Performance characteristics of next-generation sequencing for the detection of antimicrobial resistance determinants in Escherichia coli genomes and metagenomes

June 1, 2022June 2, 2022 agmcarthur

Rooney et al. 2022 Jun 1;e0002222. Short-read sequencing can provide detection of multiple genomic determinants of antimicrobial resistance from single bacterial genomes and metagenomic samples.

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antibiotic resistance big data genomics publications

Machine learning for antimicrobial resistance prediction: current practice, limitations, and clinical perspective

May 26, 2022May 26, 2022 agmcarthur

Kim et al. Clin Microbiol Rev. 2022 May 25;e0017921. Antimicrobial resistance (AMR) is a global health crisis that poses a great threat to modern medicine.

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

May 19, 2022 agmcarthur

Bertelli et al. Microb Genom. 2022 May;8(5). doi: 10.1099/mgen.0.000818. Outbreaks of virulent and/or drug-resistant bacteria have a significant impact on human health and major economic

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lab members

Welcome Keaton Smith & Farewell Romeo Chalil

May 2, 2022May 2, 2022 agmcarthur

May 1st is our annual staff roll-over for the Comprehensive Antibiotic Resistance Database (CARD). We say farewell to Romeo Chalil, who has been CARD Junior

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publications

Metformin-induced reductions in tumor growth involves modulation of the gut microbiome

April 26, 2022 agmcarthur

Broadfield et al. Molecular Metabolism 2022. Apr 20;101498. Type 2 diabetes and obesity increase the risk of developing colorectal cancer (CRC). The first-line type 2

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