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Blood Group Genome Targeted Sequencing for Precision Typing | London Calling 2024

Morgan Gueuning from the Blood Transfusion Service in Switzerland presented at London Calling 2024 on “Targeted sequencing of the entire blood group genome by adaptive sampling.” They noted that there are over 45 blood group systems coded by fifty genes and with over 350 antigens. Precise typing and matching are essential to minimize alloimmunization. Current […]
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From Troubleshooting to Streamlining

What a weekend! I am back from the NSF ENCOUR conference. I continued watching studio interviews from London Calling 2024. Tonight, the session I watched focused on pathogen surveillance and community and collaboration. Amanda Warr from The Roslin Institute spoke about learning to use Oxford Nanopore Technologies (ONT) with metagenomic samples and troubleshooting in the […]
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Whole Genome Plasmid Sequencing

Tonight, I watched a recent Oxford Nanopore Technologies video about plasmid sequencing. The title is “A new and improved ‘gold standard’ for complete plasmid verification.” This session was a Knowledge Exchange with Aaron Pomerantz, Segment Marketing Manager at ONT. They spoke about plasmids and their use in molecular biology and industrial processes. Sanger sequencing has […]
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Confirming Large HDR Insertions with Nanopore Sequencing

Mollie Schubert from Integrated DNA Technologies spoke at London Calling 2019 on “Characterizing large HDR insertions by CRISPR/Cas9 using nanopore sequencing.” They use CRISPR in cells to mediate editing. The IDT team then uses Nanopore sequencing. CRISPR-Cas9 genome editing uses RNA guides. Schubert has been delivering CRISPR-Cas9 complexes to cells. Different applications can be used […]
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Long-read Human Genome Sequencing Service

Andrea Riposati from Dante Labs in the US presented at London Calling 2019 on “Human long-read whole genome sequencing: applications and results.” Riposati is the co-founder and CEO of Dante Labs. They presented a case of a patient who had suffered 45 years without a diagnosis. Dante Labs provided whole genome sequencing and pharmacogenomics lab. […]
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Repeat Expansion Analysis

Pay Giesselmann from the Max Planck Institute for Molecular Genetics in Germany presented at London Calling 2019 on “Nanopype: processing and quantification of short tandem repeats.” The team created a data processing pipeline for targeted repeat expansion analysis and worked on STRique to quantify repeat expansion. Nanopype can be installed from the source, used as […]
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Mapping Heterogeneity in DNA Replicaiton

“Untangling heterogeneity in DNA replication with nanopore sequencing” was the title of the London Calling 2019 session that Michael Boemo from the University of Oxford in the UK presented. Boemo spoke about how genome replication has been studied on average and not individual cases. DNA replication can be studied with next-generation sequencing methods to identify […]
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The Applications of the Suitcase Lab

Tonight I watched a London Calling 2023 session by Ahmed Abd El Wahed from Leipzig University in Germany. The title of the session is “Pathogen and species identification using a mobile suitcase laboratory,” which aligns nicely with the course I am teaching: Portable Genome Sequencing (PGS). The recording had videos outside highlighting the suitcase lab. […]
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User-friendly Computational Workflows

Tonight I watched the EPI2ME updates from Matt Parker, Associate Director of Clinical Bioinformatics at Oxford Nanopore Technologies. We will use EPI2ME next week as part of the Portable Genome Sequencing course, focusing on bacterial genome assembly and metagenomics. This Nanopore Community Meeting Houston update started with a high-energy EPI2ME video highlighting updates to compute […]
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