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Highlights from ENIGMA Workshop on Isolate Sequencing

Tonight I watched Lauren Lui from Lawrence Berkley National Laboratory present a “Long Read Isolate Sequencing and Assembly Workshop.” This session was recorded April 2, 2024 and was part of the ENIGMA program. Lui provided an overview of the apps they use: Filtlong, Unicycler, Polypolish, and Flye. The team was motivated by evolving long-read technologies […]
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Optimizing Cell & Gene Therapies with Multi-Omic Sequencing

Heather Stark, the Global Segment Manager at Oxford Nanopore Technologies, introduced the webinar “Enhancing Cell and Gene Therapy Success with Multi-Omic Sequencing: The Oxford Nanopore Advantage.” Start covers biopharma and explained how nanopore sequencing works. They explained that there are several end-to-end workflows for synthetic biology, including plasmid, AAV, amplicon, and mRNA IVT sequencing. Clark […]
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Advancements in Methylation Studies Using Nanopore Sequencing

Brynja Sigurpalsdottir, a Research Associate at deCODE genetics in Iceland, spoke as part of the Oxford Nanopore Technologies webinar. The title of the session was “Large-scale methylation studies using nanopore sequencing.” deCODE is a subsidiary of Amgen. Sigurpalsdottir spoke about 5-mCpG methylation calling for ONT data. Initially, Nanopolish was one of the first algorithms trained […]
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MSK-IMPACT: Innovative Approaches in Targeted Cancer Sequencing

Stephanie Chrysanthou from the Memorial Sloan Kettering Cancer Center in the US spoke at the Nanopore Community Meeting about “Detection of germline alterations in homologous recombination repair genes by adaptive sampling.” They mentioned that pathology comes from the Greek word that is the study of suffering! The Memorial Sloan Kettering Integrated Mutation Profiling of Actionable […]
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Nanopore Transcriptomics: Discovering Isoforms in Renal Cells

Megan L. Noonan from Washington University School of Medicine in St. Louis spoke at the Nanopore Community Meeting in Boston. The session’s title was “Bulk and single-cell nanopore transcriptomics to identify alternative splicing in renal tubule cells.” Noonan spoke about the need to create new therapeutics for therapeutics. They explained that alternative is a regulatory […]
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Understanding RNA Modifications: Insights from Nanopore Sequencing

Logan Mulroney from the EMBL-EBI in the UK and Italy spoke at the Nanopore Community Meeting in Boston. The title of the session was “A survey of RNA modifications across the human transcriptome by direct RNA nanopore sequencing.” They spoke about RNA modification and their implications in diseases such as cancer. RNA modifications can have […]
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Personalized Diagnostics Through Nanopore Technology Advances

Tasos Gogakos from Arena BioWorks and Massachusetts General Hospital spoke at the ONT Biopharma Day. The title of the session was “Nanopore sequencing at the intersection between the clinic and biotech.”Gogakos is a clinical pathologist who recently started at Arena BioWorks. Gogakos began by sharing two clinical cases. The patient had lung cancer and molecular […]
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Post-Vaccination Insights: Antibody Sequencing Techniques

Scott Hickey, the Director of Commercial Applications at Oxford Nanopore Technologies, spoke at the ONT Biopharma Day in Boston. The session’s title was “Antibody discovery through post-vaccination single-cell transcriptomics and haplotype-resolved germline sequencing.” Hickey spoke about a de novo full-length antibody identification through sequencing. B cell activation and proliferation were described along with the diversity […]
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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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Understanding CoNS-seq: A Breakthrough in Viral Safety

Charles A. Swofford from the MIT Center for Biomedical Innovation presented as part of the Biopharma Day in Boston. The title of the session was “A sensitive sample preparation pipeline for adventitious virus detection using nanopore sequencing.” They emphasized the importance of viral safety assurance for biologics. The two assays used are in vivo virus […]
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