DNA

Swab to Sequence in Space

Sarah Castro-Wallace from NASA spoke at the Nanopore Community Meeting in Houston. The title of their session is “2043: A Minion Space Odyssey.” Castro-Wallace helped the audience think about a Martian habitat and using Nanopore devices to monitor crew health, planetary protection (“forward and back contamination”), and microbial surveillance. Importantly, Castro-Wallace wanted us to consider […]
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Completing Genomes of Bacterial Isolates from Outbreaks

Erin L. Young from the Department of Health and Human Services in Utah presented at the Nanopore Community Meeting in Houston on “Nanopore sequencing for enhanced antimicrobial resistance gene surveillance.” I had watched Young present previously. They spoke about using whole genome sequencing (WGS) for surveillance and its use by the Centers for Disease Control. […]
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Sequencing to Study Telomere Dynamics

Tobias T. Schmidt from the Salk Institute for Biological Studies presented at the Nanopore Community Meeting in Houston on “Telomere dynamics in aging and cancer by nanopore long-read sequencing.” Schmidt is a postdoc working on sequencing and described how telomeres protect the end of linear eukaryotic chromosomes. Telomeres shorten with every round of replication in […]
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Squiggle Analysis for Living and Dead Microorganisms

Tonight, I watched Harika Urel from the Helmholtz AI Institute and Technical University of Munich present a five-minute talk at London Calling 2023. The intriguing title of the recording is “Squiggle analysis for metagenomics viability inference.” Urel is a Ph.D. student in Dr. Lara Urban’s lab. I have watched several talks by Urban in the […]
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Metagenomic Analysis of Water from Brazilian Reservoirs and Ponds

I am still thinking about the Nanopore talk I watched yesterday. I now want to try using Flongle flow cells again! Tonight, I watched Douglas Mendel from the University of Sao Paulo, Brazil present at London Calling 2022. The session was only six minutes long and had the intriguing title: “Comparative metagenomics of natural and […]
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Identifying Complex Structural Variation with Nanopore Long-read Sequencing

“Long-read sequencing resolves cryptic structural variation in individuals with syndromic intellectual disability” was the title of the presentation Griet De Clercq from Ghent University in Belgium gave at the Nanopore Community Meeting 2022. De Clercq noted that “40% of people with intellectual disability (ID) remain without genetic diagnosis” and that current diagnostic tests used in […]
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STR Sequencing for Forensic Profiles with STRspy

Courtney Hall from the University of North Texas Health Science Center presented at the Nanopore Community Meeting 2022 on “STRspy-ing hidden variation in forensic DNA profiles using the MinION device.” Hall spoke about how short tendem repeats (STRs) are often used as the “gold standard for human identification in forensic investigations” due to their variability […]
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A Collection of Library Prep Options for Nanopore

Yan Yang from the Oxford Nanopore Technologies Technical Services North America West Coast Team, presented the NCM 2022 Masterclass “How to select the right library preparation workflow for your experiment.” Yang explained how Nanopore DNA/RNA sequencing works as the nucleic acid is passed through a nanopore and electrical signals are interpreted into sequence data. Yang […]
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