sequencing

Cell-free DNA for Methylation-based Diagnostics

Billy Lau from Stanford University School of Medicine spoke at the Nanopore Community Meeting in Houston about “Nanopore sequencing of cell-free DNA for methylation-based breast cancer detection.” I have watched Lau speak at other ONT events. This session was about a research study to improve cancer detection. Lau spoke about breast cancer detection issues. Liquid […]
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Nanopore Sequencing and Bacterial Disease Public Health Testing

Kimberlee Musser from the Wadsworth Center at the New York State Department of Health presented an update at the Nanopore Community Meeting Houston 2023. Wadsworth Center is the largest state public health laboratory with 750 staff! The Wadsworth Center receives CDC and NIH funding and develops new assays. Musser explained that they have their in-house […]
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Examining Inherited Retinal Diseases with ONT

Debarshi Mustafi from the University of Washington presented at the Nanopore Community Meeting in Houston on “Complex phased variants in inherited retinal diseases with long-read sequencing.” Mustafi talked about the thin layer of tissue forming the retina. They are interested in inherited retinal diseases (IRDs). For a long time, people thought these were auto-immunity-related diseases. […]
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Case-specific Reference Genomes for Pathogen Strain Typing

“Using long-read sequencing to generate a case-specific reference genome for pathogen strain typing” was the intriguing title of the Oxford Nanopore Community Meeting in Houston I watched tonight. Per Aspera Adastra from Baylor College of Medicine and Texas Children’s Hospital presented. They discussed a case with mother and neonate with Candida infection following fetal surgery […]
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Data Analysis Options with ONT

Tonight I watched the Nanopore Community Meeting Houston session by Bryant Catano, ONT Product Specialist. The session was a Masterclass entitled “How to get started with data analysis.” Catano spoke about the variety of options for data analysis available, from point-and-click to command line. Tools are available that are accessible, scalable, and versatile. Catano noted […]
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NCM Houston Updates

Tonight I watched the Update from Oxford Nanopore Technologies from NCM Houston. They started by explaining how the engineered motor protein and nanopore have been optimized for single-molecule high-throughput sequencing. There is an RNA-specific motor protein and nanopore. ONT allows for RNA modification detection, isoform characterization, and comparison of tails. RNA 004 is the new […]
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NCM Houston Applications Update

Tonight I watched the NCM Houston Update from Sissel Juul from Oxford Nanopore Technologies. The session is entitled “Covering all bases,” and Juul is the director of the applications team. The talk focused on variant calling mostly on the PromethION. About a year and a half ago, the telomere-to-telomere consortium published the T2T assembly in […]
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Cas9 Enrichment for ONT Sequencing

Tonight I watched the Oxford Nanopore Technologies Nanopore Learning Knowledge Exchange session on Cas9 PCR-free Enrichment. I think this kit has been discontinued, yet it is important to learn how it works. Anne-Marie Wadsworth presented the method of PCR-free enrichment using Cas9. Wadsworth noted that ONT has developed a method to use Cas9 to target […]
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ONT Library Preparation Methods

Tonight I watched the Oxford Nanopore Technologies Knowledge Exchange on “Library Preparation Kits and Methods.” David Stoddart is the Director of Sample Technology and recorded this session on January 30th, 2020. The session was focused on sequencing kits for DNA and RNA. They defined library preparation as “the act of converting sample into format compatible […]
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