sequencing

Starting to Assemble Genomes

Eoghan Harrington and David Stoddard from Oxford Nanopore Technologies presented on December 18, 2018 about Assembly as part of the Nanopore Learning Knowledge Exchange series. They are both in the Applications group. Harrington started by sharing how they approach new assembly projects from planning to sequencing. They listed the steps: planning, sequencing, assembly, and quality […]
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Phenotype Insight through 1000 Genomes

After an endoscopy and very drowsy day, I watched the Knowledge Exchange session entitled “Nanopore from 100 to 1000 genomes: towards a better understanding of phenotypes. Fritz Sedlazeck and Philipp Rescheneder were the speakers. Sedlazeck has presented with Oxford Nanopore Technologies (ONT) before and is an expert in structural variation analyses. This session was recorded […]
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An Ocean of Phages

As part of the Knowledge Exchange series of lessons, John Beaulaurier from Oxford Nanopore Technologies spoke about assembly. The session’s title is “No assembly required: nanopore sequencing complete virus genomes from microbial communities.” The session was recorded on September 30, 2019. Beaulaurier worked with academic collaborators on this project. Beaulaurier explained that marine microbial populations […]
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Multiplexing and Demultiplexing

Tonight I watched the November 13, 2018 recording of the “Sample barcoding: Sequencing in multiplex and Demultiplexing” Knowledge Exchange session in the Nanopore Learning Lesson Library. Julia Eales, an Application Scientist with Oxford Nanopore Technologies and Philipp Rescheneder presented. Eales spoke about the uses of multiplexing. I didn’t know that with dual-barcoding you can multiplex […]
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A Guide to Structural Variation Analysis

Today I watched the Knowledge Exchange session from Nanopore Learning about “A beginner’s guide to structural variation analysis: from discovery to basic annotation.” Steven Rudd, a bioinformatics expert at Oxford Nanopore Technologies, shared a couple of slides and then explored the structural variation tutorial. A structural variant (SV), Rudd said, is typically considered as “a […]
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Knowledge Exchange on Nucleic Acid Extraction

The next Knowledge Exchange session I watched from the Nanopore Learning Lesson Library was “A primer on nucleic acid extraction.” Vania Costa spoke about protocols for extraction of DNA and RNA from samples and the available tested protocols. For DNA extraction, different kits produce different fragment sizes. Costa focuses on improving extraction for Nanopore sequencing. […]
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Improving Genetic Testing through 1000 Genomes Project

Danny E. Miller from the University of Washington presented at the Nanopore Community Meeting in Singapore on “The 1000 Genomes Project Oxford Nanopore Sequencing Consortium: expanding our understanding of human genetic variation.” They started by comparing the medical history and testing performed on two patients. Miller shared a linear workflow for traditional genetic workup. Miller’s […]
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