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Plasmids and Gene Transfers

Dr. Erin L. Young from the Utah Public Health Laboratory spoke a the Nanopore Community Meeting 2022. The ten-minute session was entitled “Long-read sequencing enables in-depth characterization of plasmids encoding KPC-2 in Citrobacter freundii outbreak. Young is a senior bioinformatician. Young explained that antimicrobial resistant (AMR) infections can be expensive and challenging to treat. Citrobacter […]
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Afterwork Genome Sequencing and CRISPRoff

Sung won Lim from Binomica Labs in the USA did a flash talk at the Nanopore Community Meeting in 2022 about “MinION outcome in amateur research: three genomes from 2018 to 2022.” They started using MinION for fun as a “weekend project.” They sequenced Deinococcus radiophilus GCF 020889623.1 and compared it to other genomes deposited […]
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Stereo Duplex Nanopore Sequencing

Katherine Lawrence, a Machine Learning Bioinformatician with Oxford Nanopore, spoke at the Nanopore Community Meeting 222 about “Advances in duplex basecalling.” They defined duplex sequencing as both ends of the DNA with adaptor motor proteins and two reads from the same molecule. Duplex basecalling incorporates information from both reads’ signals and improves accuracy with the […]
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Cell Line Sequencing and HPV Research

Isabel Rodriguez from the National Cancer Institute, USA spoke at the Nanopore Community Meeting 2022 on “Analysis of viral and human oncogene expression in human papillomavirus-driven cancer.” Rodriguez shared that human pipillomavirus (HPV) is responsible for almost all cervical cancer cases, the fourth most common cancer worldwide. I also didn’t realize that the incidence is […]
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Alignments and Assemblies

We began working with the VolTRAX2 today. I’m excited to use it for library preps along with the Miroculus Miro. Tonight I watched the NCM 2022 Masterclass session by Matt Attreed on “How to generate and call variants.” Attreed is a technical applications scientist (bioinformatics) with Oxford Nanopore Technologies. They began by providing an introduction […]
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Flongles and Several MinIONs and PromethIONs

Austin Compton is a Technical Applications Specialist at Oxford Nanopore Technologies and presented a masterclass at NCM 2022. We’ve used the MinION but I don’t know as much about the PromethION and Flongle. Compton shared a slide that indicated that the Flongle flow cells have 126 pores, MinION flow cells have 512, and PromethION flow […]
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A Collection of Library Prep Options for Nanopore

Yan Yang from the Oxford Nanopore Technologies Technical Services North America West Coast Team, presented the NCM 2022 Masterclass “How to select the right library preparation workflow for your experiment.” Yang explained how Nanopore DNA/RNA sequencing works as the nucleic acid is passed through a nanopore and electrical signals are interpreted into sequence data. Yang […]
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Considerations for High-quality DNA and RNA for Oxford Nanopore Sequencing

Tonight I started watching Oxford Nanopore Technologies NCM 2022 Masterclasses. The first recording I watched was by Vania Costa on “How to extract high-quality DNA and RNA.” They spoke about considerations for different fragment lengths. For example, you may want long and ultra-long DNA fragments for assembly. However, for cell-free DNA sequencing you are likely […]
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