sequencing

Antimicrobial Resistance Detection Using Nanopore Sequencing

Kim Musser, Clinical Director, Wadsworth Center, David Axelrod Institute, presented at ESCMID Global on the use of nanopore sequencing in public health investigations. The title of the session was “Implementing next generation sequencing for rapid diagnostics and public health investigations.” Musser spoke about using nanopore sequencing for antimicrobial sequencing for antibiotic resistant bacteria to characterize […]
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Implementing Rapid Metagenomics Protocols in Healthcare

Tonight I returned from my first SABER East! It was a lot of fun! The video I watched tonight was Judith Brueur from the Great Ormond Street Hospital (GOSH) discuss the implementation of a respiratory metagenomics protocol at Guy’s and St. Thomas’ Hospital (GSTT) using Oxford Nanopore Technologies (ONT). The protocol was developed by the […]
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Advancements in Bacterial Genomic Surveillance

Dr. Gabriel E. Wagner from the Medical University of Graz presented on “Reliable whole-genome genotyping for bacterial surveillance using nanopore sequencing data” as part of the Oxford Nanopore Technologies (ONT) YouTube series. Wagner spoke about the importance of genomic surveillance for both known pathogens and surveillance of variants, including antimicrobial and vaccine resistance. This topic, […]
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Machine Learning for Quick Leukemia Diagnosis

Tonight I watched Gabriel Griffin, Assistant Professor, Dana-Faber Cancer Institute present an Oxford Nanopore Technology session titled “Rapid epigenomic classification of acute leukemia with long-read sequencing.” Griffin spoke about leukemia diagnosis requiring multiple steps and time: morphology, flow cytometry, immuno histochemistry stains, targeted sequencing, and cytogenetics. This can take up to fourteen days. Griffin and […]
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Exploring Epigenetics in Cancer: Mustafi’s Insights

Debarshi Mustafi from the University of Washington spoke about using long-read approaches to learn about genomic and epigenomic basis of cancer. The session was part of an Oxford Nanopore Technologies (ONT) YouTube video I watched tonight. Mustafi said that “there can be a lot embedded in the genetic material that we are understanding over time.” […]
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Plant Genome Assembly Insights from ONT Workshop

Tonight I watched the Oxford Nanopore Technologies (ONT) PAG Industry Workshop session titled “A single-platform solution for plant de novo genome assembly.” Jeannie Mounger, a field applications scientist with ONT, was the presenter. They noted that for plant genome assembly there are several considerations. Plant genome size varies greatly: from Mb to Gb. Polyploidy varies […]
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Exploring Biodiversity with Oxford Nanopore Technologies and Barcoded Library Pools

Tonight I continued watching the PAG Industry Workshop offered by Oxford Nanopore Technologies. Sean Prosser from the University of Guelph presented “From pandemic preparedness to planetary biodiversity: ONT enables targeted amplicon sequencing at massive scale.” Prosser noted that there are almost 35,000 amplicon-based genetic tests available in the US per year. Prosser also noted that […]
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Genomic Surveillance of H5N1 in Dairy Products

Tonight I watched another PAG Industry Workshop session by Oxford Nanopore Technologies. This one was titled “Pasteurized retail dairy enables genomic surveillance of H5N1 avian influenza in the United States.” Andrew Lail from the University of Wisconsin-Madison was the presenter. Lail explained that influenza is an RNA virus with 8 RNA segments. H5N1 influenza is […]
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Uncovering DNA Methylation to Save Sea Turtles

Why not end the day with The Turtle Project! Tonight I watched a session from the Oxford Nanopore Technologies (ONT) channel titled “The Turtle Project: Conservation epigenomics of endangered sea turtles with temperature-dependent sex determination.” Eugenie ‘Charley’ Yen from the Queen Mary University of London was the presenter. They started with a slide animation of […]
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Advancements in Nanopore Sequencing: Insights from PAG Workshop

Tonight I watched the PAG Industry Workshop Oxford Nanopore Technologies offered on January 14, 2025. In this session, Aaron Pomerantz presented updates along with Sean Mckenzie that improve assemblies. The title of the session is “New assemblers enable unprecedented de novo genome and metagenome contiguity and completeness…” The series of talks include amplicon to massive […]
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