Softwares

HERRO: Haplotype-Aware Error Correction of Ultra-Long Nanopore Reads by Mile Sikic

Mile Sikic from the Genome Institute of Singapore spoke at London Calling 2024. The session’s title was “HERRO: haplotype-aware error correction of ultra-long nanopore reads.” Sikic noted that HERRO can be used for any type of Nanopore reads. They developed Racon seven years ago. Now, there are phased genomes, and the challenge is to maintain […]
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Long-Read Sequencing for Rare Diseases: Clinical & Biopharma Day Highlights

The London Calling 2024 session I watched tonight was titled “Long-read sequencing for pathogenic and novel variation discovery in rare diseases.” Ahmad Abou Tayoun from the Al Jailila Children’s Specialty Hospital in the United Arab Emirates was the presenter. This session was part of the Clinical & Biopharma Day on Friday, May 24, 2024. They spoke about […]
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Rapid Nephrogenomics for Thrombotic Microangiopathies: Significant Time Frame Improvements

Tonight I watched the London Calling session on “Rapid nephrogenomics for thrombotic microangiopathies.” Laurent Mesnard from Sorbonne University in France was the presenter. They defined thrombotic microangiopathies (TMA) as a group of rare diseases with similar manifestations. Early diagnosis of TMA is essential. It currently takes about three days to screen. The Regulator of Complement […]
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iDTECT Integration Site Analysis Assay: Revolutionizing Quality Control for Rare Diseases

Jose-Crispin Zavala Alvarado works at PathoQuest in France. They gave a presentation at London Calling 2024. The topic was “iDTECT Integration Site Analysis assay: a paradigm shift for the quality control of biologics in rare diseases.” This collaboration between PathoQuest and Oxford Nanopore was highly productive. It resulted in the launch of the first ONT-driven […]
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EPI2ME 2024: Data Analysis and Genomic Tools

Jimmy Creith is a Field Applications Scientist in bioinformatics. They work with Oxford Nanopore Technologies and presented the London Calling 2024 Masterclass I watched tonight. The session title was “How to analyse your data with EPI2ME.” We will use EPI2ME in the course. Creith focused on how EPI2ME can be used for small and large […]
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Nanopore Sequencing: Experiment Planning and Workflow Breakdown

As we prepare for the start of a new semester, I decided to watch a Masterclass from London Calling 2024. Akelia Wauchope-Odumbo, Associate Director Technical Applications—Americas with Oxford Nanopore Technologies, presented on experimental design. The session title was “How to get started with nanopore sequencing and plan your experiment.” The masterclass series guides users from “sample to […]
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Nanopore NO-MISS Workflow for Bacterial Genomes

We are going to use the Nanopore NO-MISS workflow. It will be used to sequence several microbial isolates. This is part of the Portable Genome Sequencing course. In preparation, this London Calling 2024 session seemed useful. Alex Trotter, Development Scientist, and Chris Alder, Bioinformatician, are both at Oxford Nanopore Technologies. They presented “How to sequence […]
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Shifting to Oxford Nanopore for Clinical 16S rRNA Gene Sequencing

Trish Simner is the Director of Bacteriology and Infectious Disease Sequencing Laboratories. They work at the Johns Hopkins University School of Medicine in Baltimore, Maryland. They presented at London Calling 2024. The session’s title was “Bringing Nanopore Sequencing into the Clinical Microbiology Setting with Targeted Approaches.” Simner spoke about the advantages of long reads and […]
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Ultra-fast Deep-learned CNS Tumor Classification using Nanopore-sequencing

I watched a session from the Oxford Nanopore Technologies Clinical & Biopharma Day tonight. It was held on May 24, 2024 (part of London Calling 2024). Professor Pieter Wesseling is from the Princess Maxima Center for Pediatric Oncology in the Netherlands. He is also from the Amsterdam University Medical Centers. He presented the session titled […]
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Improved Plant Genome Assembly with Ultra-Long Nanopore Sequencing

Bosheng Li from the Institute of Advanced Agricultural Sciences of Peking University in China presented at London Calling 2024. The session’s title was “Plant T2T genome assembly using ultra-long and adaptive nanopore sequencing.” They spoke about the importance of ultra-long reads. These reads produce N50 length >100 kb. These are crucial in the assembly of […]
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