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From Plant to Publication: Empowering Students with Data Literacy Skills

Katharina Wolff from TU Braunschweig, Germany, presented a five-minute session at London Calling 2024 titled “Empowering scientists with data literacy skills in long-read genomic sequencing.” Wolff spoke about the variety of plants around us and empowering students to learn about plant diversity. They wanted to address the increasing availability of data and lack of data […]
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High-Quality Genome Assembly Tools by Oxford Nanopore

We often use Oxford nanopore reads for de novo assembly of genomes and plasmids. Sean Mckenzie, Associate Director of Genomic Applications Bioinformatics with Oxford Nanopore Technologies, provided an update on assembly performance. They described de novo assembly as “the process of reconstructing an organism’s genome sequence from a set of genomic sequencing reads.” There are […]
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Clinically Actionable Findings and Long-Read Sequencing in POG Patients

Janessa Laskin from the BC Cancer Centre and The University of British Columbia in Canada spoke at London Calling 2024 on the “Application and use of long-read sequencing in personalized cancer medicine.” Laskin explained that medical oncologists are motivated to find effective treatments for cancer and identify vulnerabilities. The Personalized OncoGenomics (POG) started in 2012 […]
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Uncovering ‘Dark’ Genomic Regions with Nanopore Sequencing – Mayo Clinic Insights

Devin Oglesbee from the Mayo Clinic spoke about “Nanopore sequencing medically relevant ‘dark’ genomic regions” at London Calling 2024. The Mayo Clinic has several locations and is interested in learning about dark/camouflaged genomic regions that are “not being met in the clinical laboratory.” Oglesbee spoke about the difference between “dark by depth” and “dark by […]
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Methylomics and Fragmentomics: Pioneering Cancer Detection Models

Hanlee Ji from Stanford University presented at London Calling 2024 on “Genomic sequencing for characterizing tumor minimal residual disease versus early cancer.” Ji spoke about apoptosis and circulating tumor DNA. Ji and the team evaluated the recurrence of metastatic colorectal cancer with circulating DNA monitoring. Early detection of breast cancer can benefit from nanopore sequencing […]
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Discovering Deeply Intronic Mutations with Nanopore Sequencing

Tom Walsh from the University of Washington in the USA spoke at London Calling about “Discovery of deeply intronic damaging mutations with nanopore sequencing.” Walsh explained that in the 1990s, genetic testing for predisposition to breast cancer began. In the 200s, additional cancer-risk genes were discovered. Now, there are numerous panels and ten genes for […]
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SamnSero Workflow: Real-time Bacterial Genome Analysis

Tonight, I watched the London Calling EPI2ME product demo: “EPI2ME: democratising bioinformatics—from point-and-click analysis to custom integrations.” Natalia Garcia, a Bioinformatics Workflow Developer with Oxford Nanopore Technologies, explained how workflows use Nextflow and Docker containers. Seventeen workflows were available at the time of the recording during London Calling. Workflows can be run via the command […]
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Long-Read Sequencing Innovations in Neurodegenerative Disease Research

Tonight, I watched the London Calling 2024 session on “breaking boundaries in neurodegenerative disease research.” Cora Vacher from Oxford Nanopore Technologies (ONT) introduced the speakers and facilitated the question and answer session. Joanne Trinh from the Institute of Neurogenetics at the University of Lubeck in Germany was the first presenter. Trinh works with a research […]
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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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Genomic Surveillance of Multi-Drug Resistant Organisms with Long-Read Sequencing

Today was the first day of our IPERT Summer Workshops! I also started watching London Calling 2024 videos available on the YouTube channel. I began with the session titled “Genomic surveillance of multidrug-resistant organisms based on long-read sequencing.” Fabian Landman works at the Centre for Infectious Disease Control in The Netherlands and the Dutch National […]
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