DNA

Metagenomics from Orthopedic Device-related Infections

Teresa Street from the University of Oxford in the UK presented at the Nanopore Community Meeting 2019 on “Metagenomic nanopore sequencing for analysis of orthopedic device-related infection.” Street spoke about the impact of hip, knee, shoulder, elbow, and ankle replacements and the percentage of revisions due to the suspicion of infection. Further surgeries are often […]
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Sequencing C. bovis in the Field

Lewis Stevens from Northwestern University presented at the Nanopore Community Meeting 2019 on “Reference genomes from the field: the genome of Caenorhabditis bovis.” Stevens spoke about nematodes and their importance as parasites! Nematodes are estimated to infect 1.5 billion people worldwide! Wow! C. elegans is, however, distantly related to the nematode parasites. C. bovis may […]
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Circularizing Genomes

Dylan Maghini from Stanford University presented at the Nanopore Community Meeting 2019 on “Genomes from metagenomes: assembling bacterial genomes with nanopore sequencing.” Maghini spoke about the importance of the human gut microbiome on human health. They noted that we still have an incomplete understanding of the gut microbiome. For example, de novo assembly aims to […]
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Nanopore Sequencing and Bacterial Genome Assembly

Mantas Sereika from Aalborg University in Germany presented at the Nanopore Community Meeting 2021 a session with a title that caught my attention tonight: “Nanopore R10.4 enables near-perfect bacterial genomes.” They spoke about Nanopore sequencing raw read accuracy improvements and issues with homopolymers. Insertions and deletions in homopolymer regions can be an issue causing frameshifts. […]
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Update on Modified Base Detection and Methylation in Nanopore

Marcus Stoiber, Principal Algorithms Researcher with Oxford Nanopore Technologies, presented an update on modified bases at the Nanopore Community Meeting in Houston. They began describing how modified bases are detected from nanopore sequencing data. Remora detects modified bases on top of base calling. This is an analogy to Remora latching on to bigger fish and […]
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Streamlined Nanopore Sequencing

“Reveal more: bring streamlined nanopore sequencing into your lab” is the title of the Nanopore Community Meeting Houston session I watched tonight. Rachel Rubinstein, a Technical Product Manager, explained new developments to streamline nanopore sequencing. Rubinstein emphasized “end-to-end” processes. They began describing the range of the PromethION devices, from the P2 to the PromethION 48. […]
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ONT Workflows for the GREGoR Project

Medhat Mahmoud from the Baylor College of Medicine’s Human Genome Sequencing Center presented at the Nanopore Community Meeting in Houston a session titled “Unraveling complex Mendelian diseases with nanopore sequencing.” They are in the Sedlacek lab and spoke about GREGoR: Genomics Research to Elucidate the Genetics of Rare Diseases project. GREGoR includes five research centers […]
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