surveillance

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Midnight and ARTIC SARS-CoV-2 Protocol Comparisons

Julie Karl & Robert Maddox from the University of Wisconsin-Madison presented at the Nanopore Community Meeting 2021 about “SARS-CoV-2 sequencing: on the midnight train to throughput.” They started with statistics from November 11, 2021 about global COVID-19 cases, including data from GISAID. The GISAID graph showed which countries had contributed to the database. Karl shared […]
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Detection and Sequencing of Coronaviruses in Wastewater

Samuel Fisch from Tulane University School of Public Health and Tropical Medicine presented at the nanopore Community Meeting 2022 a ten-minute session on “Monitoring the circulation of SARS-CoV-2 variants through community wastewater sequencing.” Fisch stated that he goal was to “perform genomic sequencing on wastewater samples to detect variant changes within the local environment.” Wastewater […]
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Cattery Epidemiology

Nick Vereecke from PathoSense BV in Belgium presented “Intra- and inter-cattery epidemiology of feline coronavirus in Belgium between 2018 and 2021” as part of the Nanopore Community Meeting 2022. This five-minute session was packed with information. They described the feline coronavirus (FCoV) that was first detected in 1963 and has 3 serotypes so far. The […]
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Influenza WGS Surveillance and Direct RNA Sequencing of Brain Samples!

Tonight I watched two short Nanopore Community Meeting 2022 recordings. I started with Sarah Scott from the the Minnesota Public Health Laboratory, USA who presented on the “Exploration of Oxford Nanopore long-read sequencing to contribute to influenza surveillance at the state level.” Scott is an APHL and CDC Fellow. Scott explained that genomic surveillance of […]
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Learning to Troubleshoot by Exploring the Capabilities of Adaptive Sampling

Continuing with Devin M. Drown’s work, today I watched their Nanopore Community Meeting 2022 session entitled “Portable genomics hackathon for pathogen detection: a practical application of adaptive sampling to engage undergraduate learning.” Drown is at the University of Alaska Fairbanks. Drown explained that the MinION can be used to engage students in problem-solving and applications […]
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New Diagnostic Approaches Using Nanopore Sequencing

Professor Laurent Mesnard from from the Medecine Sorbonne Universite spoke at the Nanopore Community Meeting 2022 about “Rapid genomic analysis for thrombotic microangiopathies (TMA) diagnosis.” Their approach combined Nanopore adaptive sampling, EPI2ME, and SeqOne approach. They described TMA and the need to detect early. Mesnard explained that the biggest challenge for TMA is early intervention. […]
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Portfolios and Surveillance

Marie Selvanadin and Lee Skallerup Bessette both did several presentations for the OERxDomains21 conference. Their session entitled “Beyond Portfolios” and high-impact practices. I did not know that ePortfolios were added to AAC&U’s list of high-impact practices, as mentioned by Skallerup Bessette. Building on the use of websites and portfolios, Skallerup Bessette mentioned group work and […]
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