The “Nanopore Sequencing Ultra Rich Data for Cancer Research” webinar featured Sayonika Mohanta, the Market Segment Manager for Methylation with Oxford Nanopore Technologies (ONT). Mohanta began by emphasizing that cancer research requires multimodal approaches. The example they presented was the use of WGS of cell-free or circulating tumor DNA combined with proteomics and methylation. They […]
Tonight, I watched the second half of a new Knowledge Exchange session focusing on “Sequencing and analysis of nanopore-only microbial isolates with the NO-MISS workflow.” Different extraction methods produced varying yields. Bead-beating and enzymatic lysis extractions affect read length and throughput, while fungal samples produce lower yields. Some potential issues include incomplete lysis and contaminants. Additional clean-up […]
We hosted a bioinformatics workshop with Oxford Nanopore Technologies specialists! It was fun to learn about EPI2ME updates. Tonight, I watched the beginning of a new Knowledge Exchange session focusing on “Sequencing and analysis of nanopore-only microbial isolates with the NO-MISS workflow.” The webinar began with a review of the applications related to microbial isolate […]
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 […]
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 […]
Tonight, I watched the London Calling EPI2ME product demo: “EPI2ME: democratising bioinformatics—from point-and-click analysis to custom integrations.” Natalia Garcia, a Bioinformatics Workflow Developer with Oxford Nanopore Technologies, explained how workflows use Nextflow and Docker containers. Seventeen workflows were available at the time of the recording during London Calling. Workflows can be run via the command […]
Pay Giesselmann from the Max Planck Institute for Molecular Genetics in Germany presented at London Calling 2019 on “Nanopype: processing and quantification of short tandem repeats.” The team created a data processing pipeline for targeted repeat expansion analysis and worked on STRique to quantify repeat expansion. Nanopype can be installed from the source, used as […]
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 […]
Kiran V. Garimella from the Broad Institute spoke at the Nanopore Community Meeting 2019 about “Long-read genomes and transcriptomes on the cloud.” Garimella shared photos of the PromethION 48 at the Broad. They shared a graphic of the amount of data produced at the institute over the last decade. Garimella explained that at one point, […]
Matt Parker, the Associate Director for Clinical Bioinformatics at Oxford Nanopore Technologies, spoke at the Nanopore Community Meeting in Houston about updates to EPI2ME. The session started with a new video about EPI2ME, highlighting the intuitive interface, real-time data, and cloud or local analyses. Parker said you can take a MinION and laptop into the […]