sequencing

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Copper Butterflies Genomes and ORG.one

Tonight I watched Dan Fordham, Director of Strategic Product Management EMEA at Oxford Nanopore Technologies (ONT) speak at London Calling 2023 about. Fordham is the lead for the Org.one project in which ONT tries to address the global biodiversity crisis. ORG.one offers free consumables and kits to users sequencing critically endangered organisms. One of the […]
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Detection of Co-infections through Multiplex Assay Design

“Detection and differentiation of respiratory viral pathogens using near real-time sequencing” is the title of the London Calling 2023 session by Lukasz Rabalski from the University of Gdansk & Military Institute of Hygiene and Epidemiology in Poland. Rabalski is interested in co-infections and their prevalence and clinical impact. Co-infections can increase the severity of diseases […]
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Structural Variation Landscape Analysis with SAVANA

Hilary Elrick from EMBL-EBI in the UK spoke at London Calling 2023 about “SAVANA: a computational method to characterise structural variation in human cancer genomes using nanopore sequencing.” They spoke about the structural variants in cancer and how much is still unknown or understudied. Elrick studied sarcoma and glioblastoma. Sarcomas are cancers of bone and […]
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Multiple Sequencing Approaches for HPV Analyses

Nicole Rossi & Michael Dean presented at Nanopore Community Meeting 2021 on: “Resolution of complex human papillomavirus and human sequences.” Rossi and Dean are from the National Cancer Institute. Rossi spoke about the impact of human papilloma virus (HPV). Cervical cancer causes numerous deaths. The HPV genome has two oncogenes and promotes genome instability. HPV […]
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Near-perfect Bacterial Genomes and MAGs

Mantas Sereika, a Ph.D. student at Aalborg University in Denmark, spoke at the Nanopore Community Meeting 2021 about “Nanopore R10.4 enables near-perfect bacterial genomes.” This topic is of interest for several of the courses I teach. Sereika spoke about the improvements in accuracy of Nanopore sequencing. Raw read accuracy has increased but there are still […]
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Starting Graduate School in a Sequencing Laboratory

Hannah Trivett from the University of Liverpool is a doctoral student who presented at the Nanopore Community Meeting 2021. The title of the presentation was “Highlights of a regional sequencing surveillance hub during a global pandemic.” They described the COVID-19 Genomics UK Consortium involved in a massive sequencing initiative. The University of Liverpool is involved, […]
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Whole Plasmid Nanopore Sequencing

Tonight I watched the “Plasmid sequencing, assembly and analysis workflow” video with speaker Jon Pugh, Associate Director of Platform Marketing at Oxford Nanopore Technologies. The whole plasmid nanopore sequencing workflow allows for sequencing analysis of inserts, promoters, and backbones. With Nanopore sequencing, it is possible to use a single technique “in-house.” The workflow they suggest […]
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The Challenge of Sequencing the Abeoforma Genome

Victoria Shabardina from the Institute of Evolutionary Biology (UPF-CSIC) in Spain presented at London Calling 2022 on “Enigmatic genome of Abeoforma whisleri helps our understanding of the origin of animals.” This eleven-minute session has an intriguing title: what is A. whisleri? They spoke about the origin of multicellularity and the closest unicellular relatives. The organisms […]
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