Metagenomics

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Nanopore Sequencing in Cell Therapy Testing

Stacy L. Springs from the MIT Center for Biomedical Innovation presented at the NCM Biopharma Day in Boston on “Application of nanopore long-read sequencing to sterility testing for cell therapy products.” Springs spoke about the diversity of impurities in biological medicines. They spoke about the need for rapid sterility testing in cell therapy manufacturing. Springs […]
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Feasibility of Rapid Respiratory Metagenomic Sequencing for ICU Patients

Gaia Nebbia from the Guy’s and St. Thomas’ NHS Foundation Trust in the UK presented at London Calling 2024. The session focused on respiratory metagenomics in clinical service. This study explored metagenomic sequencing for respiratory infection control and diagnostics. The team identified areas of improvement for the identification of viral sequences. The aim of the […]
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EPI2ME 2024: Data Analysis and Genomic Tools

Jimmy Creith is a Field Applications Scientist in bioinformatics. They work with Oxford Nanopore Technologies and presented the London Calling 2024 Masterclass I watched tonight. The session title was “How to analyse your data with EPI2ME.” We will use EPI2ME in the course. Creith focused on how EPI2ME can be used for small and large […]
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Real-Time Analysis Challenges and RT-Metagenomics Workflow Demo

Tonight, I watched the London Calling 2024 EPI2ME Product Demo. The session title is: “EPI2ME: democratising bioinformatics – from point-and-click analysis to custom integrations.” Sarah Griffiths, ONT Bioinformatics Workflow Developer, gave an overview of the EPI2ME workflows. The workflows use Nexflow and containers. At the time of recording, they had seventeen workflows. Griffiths noted that […]
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Nanopore Sequencing Advancements: Optimizing Metagenome Assemblies

It was great to see Lauren Lui from the Lawrence Berkley National Laboratory present at London Calling 2024 on “An unprecedented metagenomic landscape of European and North American coastal samples.” Lui is a research scientist and, while at Miten Jain’s lab at Northeastern University, loaded 34 PromethION flow cells, generating 5 Tbases of data! Lui […]
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Healthcare Research Gaps and Innovations: London Calling 2024 Studio Interviews

Tonight, I watched another series of London Calling 2024 studio interviews. Zoe McDougall spoke to three researchers. Carika Weldon from CarGenetics in Bermuda explained the healthcare research gaps. Heather Carleton from the Centers for Disease Control and Prevention explained how poop samples can be used to detect outbreaks… including the idea of mobile sampling with […]
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eDNA Monitoring and Jellyfish

Cheryl L. Ames from the US Naval Research Laboratory presented at London Calling 2019 on “Field-forward sequencing with Oxford Nanopore technology – a strategy to establish the upside-down mangrove jellyfish Cassiopea xamachana as a bioindicator.” They emphasized the biodiversity of the ocean is largely unexplored… and also threatened by climate change and overfishing. Environmental DNA […]
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Reticulatus

Samuel Nicholls from the University of Birmingham in the UK presented at London Calling on “Long-read nanopore metagenomics for reconstruction of bacterial genomes.” They spoke about the impact of microbial communities on human health and the difficulties we encounter trying to culture some microbes. Nicholls and team published a study sequencing the Zymo mock communities. […]
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Microbial Bioprospecting in the Desert

Adriel Latorre-Perez from the Darwin Bioprospecting Excellence S.L. in Spain presented at the Nanopore Community Meeting 2021. I had watched this session previously and wanted to review it since I assigned a video this week related to bioprospecting. The title of the session is “A round trip to the desert: in situ nanopore sequencing informs […]
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Metagenomics of the River Ganges

Mahesh Dharne from the CSIR National Chemical Laboratory in India presented at London Calling 2019. The session’s title was “Metagenomics of India’s largest River Ganges confluence at Prayagraj, India using MinION sequencing.” The Ganges is the largest river in India and third in the world. With this program, the research team is mapping the metagenomes […]
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