genetics

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Cleaning Up Plant DNA

Stella Loke from Deakin University in Australia spoke at London Calling 2019 about “Optimising plant DNA extraction for nanopore sequencing.” We are considering sequencing plant DNA this summer and, therefore, want to learn more about plant DNA challenges. Loke spoke about wanting the nano spec readings from Qubit to match the nano spectrophotometer. Loke confirms […]
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Ultra-long Reads for Sea Snake, Lizard, and Dragon Genomes

I have been reading about the Ultra-long Sequencing Kit from Nanopore to try it this summer. Tonight I found the Ultra-long Reads YouTube playlist from ONT. I watched the session by Jillian Hammond from the Garvan Institute of Medical Research in Australia. They presented on the use of Ultra-long Reads for Australian Reptiles. They noted […]
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Characterization of Genetically-modified Microorganisms

Jolien E’aes from Sciensano in Belgium presented at the Nanopore Community Meeting 2021. The title of the presentation is “Characterization of genetically modified microorganisms is facilitated by long-read whole-genome sequencing.” I don’t think I have watched this session before! D’aes explained how Sciensano, the Belgian Institute for Public and Animal Health. They focus on food […]
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AMRs in Complex Environmental Matrices

Rob James from the University of Warwick in the UK presented a session titled “From amplicons to metagenomes: long-read sequencing the environment” at London Calling 2019. James spoke about complex environmental matrices such as soil, sediment, and excreta that are often impure and biologically and chemically contaminated. Different extraction methods are used depending on the […]
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Spider Silk and Arachnid Genomes

Sarah Stellwagen from the University of Maryland, Baltimore County, spoke at the Nanopore Community Meeting 2019 on arachnids! The title of the session is “Advances in arachnid genomics using Oxford Nanopore’s MinION.” They study spider silk genetics and also harvestmen. Stellwagen explained that there are several different types of silk to make egg sacs, joints, […]
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Pharmacogenomics in the Era of Long-read Sequencing and Adaptive Sampling

Koen Deserranno from Ghent University in Belgium presented a lightning talk at London Calling 2023. The title was “Advancing targeted haplotyping in pharmacogenomics using adaptive sampling.” For example, they explained that pharmacogenomics studies the genetic impact on drug efficiency. There is a need for long-read sequencing for some pharco genes. The current pharmacogenomics information, Deserranno […]
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Detecting the Epigenome with ONT

Chen Yong from Oxford Nanopore helped facilitate the Knowledge Exchange session I watched tonight: “Decoding the epigenome with Oxford Nanopore real-time methylation detection.” This webinar was recorded. Sayonika Mohanta from ONT explained that methylation is central to gene expression. They spoke about the role of methylation in gene expression: her or hypo methylation can affect […]
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A Nanopore-based Approach to Detect and Analyze Repeat Anomalies

Hagar Mor-Shaked from the Hadassah Medical Organization and Faculty of Medicine, Hebrew University of Jerusalem, presented a lightning talk at London Calling 2023. The title of the session is “Pathological short tandem repeats analysis by long-read sequencing in affected individuals.” They were also an employee of the Geneyx company that did genomic analysis. Mor-Shaked spoke […]
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Use of Long-read Sequencing in a Contract Food Laboratory

Andrzej A. Benkowski from Eurofins Microbiology Laboratories in Madison, WI, presented at London Calling 2023 a lightning talk on the “Practical uses of nanopore long-read sequencing in a high-throughput contract food laboratory.” They presented a few case studies from the contract lab. The first case study was from a client who experienced an increase in […]
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