Gianna Marschmann from Lawrence Berkeley National Laboratory presented at the KBase Microbial Community Modeling workshop. The title of the session was: DEBmicroTrait: Trait-based Microbial Community Modeling in KBase Overview.” Marschmann is a postdoc with Ulas Karaoz. Genome-informed trait-based modeling takes multidimensional data. Marschmann noted that they can reduce dimensionality and model traits. The parameter distributions […]
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 […]
Tonight, I watched the Microbial Annotation Workshop on the KBase YouTube channel. This session was posted on July 9, 2024. The title of the session was “Implementation of MEGGA through new KBase model building and gapfilling apps.” The KBase narrative used in the workshop is publicly available. The static version of the narrative is called […]
Min Wang from Murdoch Children’s Research Institute in Australia presented at the Nanopore Community Meeting in Singapore 2023 on “Variant segregation in rare disease singletons and duos using nanopore adaptive sampling.” They spoke about a method to learn about rare variants when samples from both parents are not available. When one DNA is not available, […]
Tonight I started watching videos from London Calling 2023! I started with the presentation by Jonathan Broadbent from the Ontario Institute for Cancer Research & the University of Toronto, Canada. Broadbent presented about “Nanomix: methylation-based cell-type deconvolution for low-pass nanopore sequencing.” They defined cell-free DNA (cfDNA) as “a mix of DNA from blood cells and […]
Tonight I watched Stephanie Foote’s (Gardner Institute) Lilly Conference presentation on metacognition and reflecting on our teaching practice. Building on the work of Tanner and others, Foote provided a framework for reflecting on our impressions of student engagement after our lesson and obtaining student feedback. Several classroom assessment techniques including think-pair-share, minute papers, good fors, […]