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SISPA, SASA, and Identification of Avian Influenza

Maria Chaves from Iowa State University presented at the Nanopore Community Meeting in Houston on “Enrichment strategies for recovery of Avian influenza virus from samples using MinION.” They spoke about the current highly pathogenic avian influenza (HPAI) outbreak and the importance of timely identification and characterization. Avian influenza is a huge problem for the poultry […]
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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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cDNA Sequencing with ONT

Today I watched the Oxford Nanopore Technologies Knowledge Exchange session entitled “cDNA sequencing on the Oxford Nanopore platform.” Philip James and Botond Sipos were the presenters. While this session is a couple of years old, it will help me plan as we prepare for the spring course and undergraduate research. James spoke about how complementary […]
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