ONT

Advancements in Antisense Oligonucleotide Design

Joy Goffena from the University of Washington presented at London Calling 2025. The title of the session was “Variant phasing for antisense oligonucleotide design using adaptive sampling.” Goffena explained antisense oligonucleotide (ASO) technology as short DNA or RNA that can bind target RNA to block translation or even modulate splicing. The goal of their work […]
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Efficient Genome Assembly with Hifiasm

Haoyu Cheng from Yale University spoke at London Calling 2025 on “Efficient telomere-to-telomere genome assembly with nanopore reads using hifiasm.”Cheng described the challenges of assembling a diploid human genome. In 2022, the first telomere-to-telomere (T2T) human genome was published. One current strategy is to use long-read data and phasing. There are computational challenges. Hifiasm is […]
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Comparing Illumina and ONT for Genome Analysis

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 […]
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Understanding Vancomycin-Resistant _E. faecium_ Transmission in New Zealand

Rhys White from the Institute of Environmental Science and Research in New Zealand presented at London Calling 2025. The title of the session was “Nanopore sequencing captures first in-patient evolution of vancomycin-resistant E. faecium in New Zealand.” White explained that Enterococcus faecium lives in the human gut and is a Gram-positive opportunistic pathogen. White and […]
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Creating a Tonsil Atlas to Study Lymphocytic Leukaemia

Ivo Gut from the National Centre for Genomic Analysis in Spain presented at London Calling 2025 on “Going the extra mile to understand chronic lymphocytic leukaemia.” Gut explained that they wanted to focus on single-cell RNA-seq during leukemia and proposed studies to the European Research Commission. The team had preliminary data indicating two distinct clusters […]
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Nanopore Sequencing in Clinical Settings: Insights from UMC Utrecht

Marcel Nelen from the UMC Utrecht in the Netherlands, spoke at London Calling 2025 on “Nanopore sequencing: a newbie’s perspective on needs in a clinical setting.” The Genome Diagnostics section at UMC Utrecht is a genome diagnostic center that works under ISO accreditation. All the tests are accredited by the Dutch accreditation council. Nelen noted […]
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Identifying Novel Gene Isoforms with CT-seq

Yasuhiro Murakawa from Kyoto University in Japan presented at London Calling 2025 on “A compendium of human RNA structures and modifications.” Kazuhiro Takeuchi from the Murakawa lab generated a de novo human transcriptome assembly using “full-length” cDNA sequencing. Murakawa noted that there are many RNA forms and regulation events. Long-read sequencing methods, while useful in […]
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Acute Leukemia Classification Using Machine Learning

Salvatore Benfatto from the Dana-Farber Cancer Institute presented at London Calling 2025 on “Rapid epigenomic classification of acute leukemia.” Benfatto started with a clinical case of a sixty-one year old female patient with intermittent fevers, fatigue, and leukocytosis. Multiple tests had to be run in parallel, including flow cytometry, karyotyping, immunohistochemistry… The process is time […]
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London Calling 2025 ONT Application Updates

Sissel Juul, Vice President of Applications with Oxford Nanopore Technology and Sean McKenzie, Associate Director of Genomics Applications, provided the London Calling 2025 applications update. Juul explained that the applications team is global. Haplotype-resolved genetic variation detection and interpretation has been updated to use assembly approaches. However, assembly can be very challenging, especially with two […]
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Implementing Rapid Metagenomics Protocols in Healthcare

Tonight I returned from my first SABER East! It was a lot of fun! The video I watched tonight was Judith Brueur from the Great Ormond Street Hospital (GOSH) discuss the implementation of a respiratory metagenomics protocol at Guy’s and St. Thomas’ Hospital (GSTT) using Oxford Nanopore Technologies (ONT). The protocol was developed by the […]
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