After a good vacation in San Miguel de Allende, Mexico, I am back! Tonight I watched Michael Wiley from the University of Nebraska Medical Center in the USA present at London Calling 2025 on “Automated sample-to-answer workflows for whole genome sequencing to investigate hospital-acquired infections.” The public health labs are embedded in the medical center […]
Christopher Longo and Barbara Frey from the University of Pittsburgh spoke at the Quality matters Quality in Action conference on “Leveraging Automation for Teaching Efficiency.” Longo is an instructional design specialist with a decade of experience. Frey is very active with Quality Matters and teaches courses on instructional design. The goal of this session was […]
Continuing with the KBase Science Session: Data integration to support (or refute) predictions, tonight I watched Chris Henry from Argonne National Laboratory present on “Predicting Protein function using structure nd sequence similarity in KBase.” Henry and team built a pipeline in KBase to analyze structure and sequence similarity data. Henry noted that KBase has a […]
Jade Bartolo, the Associate Director for Automation at Oxford Nanopore Technology (ONT), introduced the ElysION. The five-minute recording is titled “Smarter genomics for streamlined answers – ElysION, sample-to-answer nanopore sequencing.” The ElysION has an integrated thermocycler and a MinION Mk1D or PromethION P2. The system can also shake and is compatible with tubes and plates. […]
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 another London Calling 2024 studio interview. Zoe McDougall previously interviewed two of the three guests. Ronja Friedhoff is a master’s student at the Technische Universitat Braunschweig in Germany. They explained the benefits of networking opportunities at London Calling 2024: Friedhoff learned about new research areas and met new people. Ivo Gut from […]
Anika Kinkhabwala, a Genomics Manager with EpiBiome, presented at the 2017 Nanopore Community Meeting on “Understanding phage-bacterial host interactions for smarter therapeutics.” They spoke about the trends of antimicrobial resistance. EpiBiome is working with phages. Kinkhabwala noted that phages are very specific and recognize cells. Phage research has been happening since the 1920s. EpiBiome uses […]
“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. […]
The next lesson in the Nanopore Learning course for Human genome sequencing and analysis I watched was the introduction to data analysis solutions video. The speaker, Anthony Doran, shared a graphic with the different bioinformatics options provided by Oxford Nanopore. EPI2ME is the real-time cloud-based platform. There are several workflows for quality control, alignment, and […]
Tonight I watched the “Welcome back to London Calling 2023” session. Rosemary Sinclair Dokos, Senior VP of Product & Programme Management at Oxford Nanopore Technologies (ONT) was the presenter and began day two of London Calling 2023 by talking about the journey of ONT. Sinclair Dokos found several parallels between the London Underground construction and […]