Tonight I continued watching the LISA workshop videos. Lauren Lui from Laurence Berkley National Lab explained the apps available on KBase for long-read only and hybrid assemblies. Using a KBase narrative, Lui shared a Spades short-read-only assembly with 30~ contigs. They described the N50 as a metric for comparing genome assemblies. To calculate N50, contigs […]
Tonight, I continued watching the Oxford Nanopore Technologies session from ASM Microbe 2024. The title of the session was “Celebrating a decade of DNA discoveries: 10 years of the MinION in microbiology.”Before the second speaker, the live sequencing demo was shown on the screen. The team was sequencing a microbe and had the audience guess […]
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 […]
Jolien E’aes from Sciensano in Belgium presented at the Nanopore Community Meeting 2021. The title of the presentation is “Characterization of genetically modified microorganisms is facilitated by long-read whole-genome sequencing.” I don’t think I have watched this session before! D’aes explained how Sciensano, the Belgian Institute for Public and Animal Health. They focus on food […]
Mads Albertsen, Associate Professor at Aalborg University, presented at the Nanopore Community Meeting 2017 on “Genome-centric metagenomics in the long-read era.” Albertsen talked about how we live in a bacterial world. However, only a small fraction can be grown. Single-cell genomics is challenging. Metagenomics has the potential to separate genomes through binning. Now you can […]
Ryan Wick from the University of Melbourne spoke at the Nanopore Community Meeting 2017. They explained that assemblies still fail. The title of the session is “Assembly is still hard: challenges in genome assembly in the era of long reads.” Wick shared an example of a bacterial genome sequence that leads to inaccuracy in sequencing. […]
Jolien D’aes from Sciensano, Belgium presented at the Nanopore Community Meeting 2021 on “Characterization of genetically modified microorganisms is facilitated by long-read whole-genome sequencing.” They explained that Sciensano is the Belgian science institute for food and animal safety. They monitor GMO-derived fermentation products. They may contain antimicrobial genes as resistance markers. Regulation prohibits the presence […]