Nanopore

Ultra-Fast Classifiers for Pediatric Tumors: Insights from Lennart Kester

I am back from SABER and getting settled. Tonight I watched Lennart Kester from the Princess Maxima Center in The Netherlands present on “Ultra-fast deep-learned classification algorithms for diagnosing pediatric CNS and solid tumors” at London Calling 2025. Kester explained that over the years they have observed an increase in the number of tumor entities, […]
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Advancements in Nanopore HLA Testing for Pharmacogenomics

Thidathip Wongsurawat presented at London Calling 2025 on “Nanopore-based HLA testing: a rising star driving real-world clinical implementation in pharmacogenomics.” Wongsurawat is from Mahidol university in Thailand. Wongsurawat has been using nanopore sequencing since 2017 and moved back to her hometown after doing research in the US. Now they work with a company and set […]
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Exploring Life’s Origins with Oxford Nanopore Sequencing

David W. Deamer from the University of California Santa Cruz presented at London Calling 2025 on “Oxford Nanopore sequencing: a way to explore life’s origin.” Deamer started with a quote from Charles Darwin speculating on the origin life. An alternative, Deamer shared, is an evaporating puddle on Mount Mutnovsky in Mamchatka, Russia. Evaporation of a […]
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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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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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Insights from KBase LISA: Base Calling in Sequencing

Tonight I started watching the recordings from the KBase LISA workshop. I watched the base calling session by Torben Nielsen from Lawrence Berkeley National Laboratory. Nielsen compared PacBio and Nanopore sequencing. PacBio is sequencing by synthesis with limited length. Base calling is performed by image processing. The native error rate for PacBio is about 15%, […]
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Understanding the MinION Mk1D: Innovations for Microbiology

Tonight, I continued watching the session on the MinION Mk1D. The second speaker of the webinar was James Platt, the Director of Sequencing Platforms with Oxford Nanopore Technologies (ONT). They described the details of the MinION’s history. The Mk1D was rebuilt, including USB-C connectivity, Peltier module temperature control, and LED run status indicators. A comparison of the Mk1B […]
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MSK-IMPACT: Innovative Approaches in Targeted Cancer Sequencing

Stephanie Chrysanthou from the Memorial Sloan Kettering Cancer Center in the US spoke at the Nanopore Community Meeting about “Detection of germline alterations in homologous recombination repair genes by adaptive sampling.” They mentioned that pathology comes from the Greek word that is the study of suffering! The Memorial Sloan Kettering Integrated Mutation Profiling of Actionable […]
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Nanopore Transcriptomics: Discovering Isoforms in Renal Cells

Megan L. Noonan from Washington University School of Medicine in St. Louis spoke at the Nanopore Community Meeting in Boston. The session’s title was “Bulk and single-cell nanopore transcriptomics to identify alternative splicing in renal tubule cells.” Noonan spoke about the need to create new therapeutics for therapeutics. They explained that alternative is a regulatory […]
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