Month: March 2023

Adapting Technologies with Adaptive Sampling for Target Enrichment

Abderaouf Hamza from the Institut Curie in France spoke at the Nanopore London Calling event last year about “Targeted nanopore sequencing ushers in the era of routine long-read sequencing in translational research laboratories.” This ten-minute session started with how Hamza uses nanopore sequencing for cancer genomics, particularly using adaptive sampling. They use target region enrichment […]
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Analysis of Multi-resistant Spirochaetes

Nick Vereecke from PathoSense BV Belgium presented at London Calling 2022 on “Emergence of new multi-resistant Brachyspira hyodysenteriae strains in Belgian pigs, revealed by high-quality whole-genome sequencing. This five minute session began with an introduction about the losses due to B. hyodysenteriae and swine dysentery. Vereecke noted that this organism is a spirochete bacterium with […]
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Trapping AMR Exchanges

Perfect timing! Tonight I watched Richard Goodman’s London Calling 2022 session titled “The bacterial black market: utilising sequencing to study the inter-cellular and intra-cellular transfer of AMR genes in bacteria.” I have been working on an AMR detection protocol using digital PCR for class today. Goodman is at the Liverpool School of Tropical Medicine in […]
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Creating Field Laboratories for Conservation Efforts

Tonight I watched a five-minute Oxford Nanopore Technologies London Calling 2022 session by Mrinalini Erkenswick Watsa and titled “Genomics in the jungle: a field laboratory success story.” Mrinalini Erkenswick Watsa is at the San Diego Zoo Wildlife Alliance and is a field scientist working on conservation. They spoke about the need to assess populations pre […]
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Zooming In and Out of Multi-Omics

Dan Turner leads the Applications Team at Oxford Nanopore Technologies and presented at London Calling 2022 a session entitled “A single platform for multi-omics.” Turner mentioned that they have developed a set of posters for different applications. They spoke about epithelial to mesenchymal transition (EMT). They are able to analyze this process using Nanopore sequencing […]
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Ultrafast Nanopore Genome Sequencing for Critical Care

Tonight I watched the London Calling 2022 session by Euan Ashley from Stanford University. The title of this twenty-minute session was “The potential of ultrarapid nanopore genome sequencing for critical care medicine.” Ashley emphasized that the cost of genome sequencing has decreased rapidly over the last decade. With this, the accuracy has also improved. Ashley […]
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CaptureSeq with Long Reads and Brain Samples

Nicola Hall from the University of Oxford in the UK spoke at London Calling 2022 about “Multiplexed, long-read CaptureSeq identifies full-length transcript isoforms in the human brain.” I have been interested in CaptureSeq and this ten-minute session was intriguing. Hall and colleagues are interested in voltage-gated channels, but they have very low levels of RNA […]
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Resolving Structural Variants with Nanopore Sequencing

Belen de la Morena Barrio from the University of Murcia/CIBERER, Spain presented at London Calling 2022 on “Genetic dissection of structural variants in study subjects with antithrombin deficiency by nanopore sequencing.” Morena Barrio was introduced to Nanopore during their doctoral work, and they have now developed methods. They spoke about thrombin deficiency: antithrombin deficiency (SERPINC1) […]
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You can’t sequence what you don’t have!

Tonight I continued watching masterclass sessions from the 2022 London Calling event. Vania Costa is an Applications Scientist with Oxford Nanopore Technologies and presented a masterclass on “Preparation: extracting high-quality DNA and RNA.” They spoke about pre-lab considerations, sample storage, DNA and RNA extraction, sample quality control, and several case studies. Pre-lab considerations mentioned by […]
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