2023 – Page 10 – Carlos C. Goller

October 2, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Building Capacity and Sharing Data

Tonight I watched Zoe McDougall, VP Strategic Communications and Corporate Affairs at Oxford Nanopore Technologies (ONT), interview Rich Scott and Abdul Karim Sesay at London Calling 2023. Scott is a medic with Genomics England and was excited about using single-cell sequencing to learn about tumors. Sesay is from the MRC Unit in Gambia and spoke […]

October 1, 2023
By Carlos C. Goller
Reflections, Softwares, Undergraduate Research

Daffodils and Advances in Access to ONT

Continuing with London Calling 2023, today I watched The Daily Preview with interviews with Thidathip Wongsurawat, Jon Hale, and Matt Loose. The recording was only eleven minutes long. Zoe McDougall from ONT Communications interviewed them. Wongsurawat spoke about the bottlenecks in cancer genomics in Bangkok. They were excited about automated analyses and pipelines that streamline […]

September 30, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Conservation Efforts Supported by Long-read Sequencing

Tonight I watched the entire London Calling 2023 Showcase Stage on Conservation. The first speaker was Luca Pandolfini from the Italian Institute of Technology in Italy who presented on “From genome assembly to epigenome characterisation: a nanopore journey in the footsteps of an endangered tortoise.” I remember this session! They worked on Pyxis arachnoides, a […]

September 29, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Targeted Sequencing Session Takeaways

Tonight I watched the entire Targeted sequencing showcase from London Calling 2023. The first panelist was Lukas Wellguny, a Ph.D. student from EMBL-EBI in the UK. Their presentation title was “Dynamic, adaptive sampling during nanopore sequencing using Bayesian experimental design.” They take data from the sequencer and incorporate a model to derive uncertainty scores at […]

September 28, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Using Nanopore Sequencing for Liquid Biopsies

The recording for the London Calling 2023 Liquid Biopsy session was posted, and I watched it tonight. The first panel member was Billy Lau who spoke about “Nanopore sequencing of cell-free DNA for methylation-based breast cancer detection in a case-control research cohort.” I had watched the individual talks previously but not the complete session. Lau […]

September 27, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Centromere Evolution in Gibbons

Gabrielle Hartley from the University of Connecticut presented at London Calling 2023 a session entitled “Telomere-to-telomere nanopore-based genome assembly reveals genomic and epigenetic features of karyotype radiation.” Hartley is a Ph.D. candidate. They are using Nanopore-based sequencing to learn about chromosome evolution in primates. Hartley is focusing on gibbons, small endangered apes with 18-20 species […]

September 26, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing

Characterization of Small eccDNA Involved in Cancer

Fei Xiao from the Beijing Hospital in China presented at London Calling 2023 a session entitled “Small extrachromosomal circular DNAs as biomarkers for potential pan-cancer diagnosis and prognosis.” They defined extrachromosomal DNA (eccDNA) as “circular DNA molecule that is independent of conventional chromosomes and exists widely in eukaryotes” and can vary in length, though most […]

September 25, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Structural Variants in Bovine Populations

Tuan Viet Nguyen, a research scientist from Agriculture Victoria in Australia, presented at London Calling 2023 on “Discovering the missing variation: a long-read sequencing study into the structural variation in two dairy breeds.” They defined structural variants (SVs) as larger than 50 bps and can be deletions, duplications, and inversions. Structural variants, Nguyen noted, are […]

September 24, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Cotton Diversity Analyses with Nanopore Sequencing

Babita Singh from the CSIR National Botanical Research Institute in India presented at London Calling 2023 on “Exploring targeted genetic diversity in the core Indian cotton germplasm using Oxford Nanopore platforms.” Singh is a postdoctoral fellow and spoke about how “cotton fibers are unicellular epidermal trichomes of ovules” and one of the most abundant crops […]

September 23, 2023
By Carlos C. Goller
Oxford Nanopore Technologies, Reflections, sequencing, Softwares

Improved Pharmacogenomics with Adaptive Sampling

Tonight I watched the London Calling 2023 session entitled “Advancing targeted haplotyping in pharmacogenomics using adaptive sampling.” Koen Deserranno from Ghent University in Belgium spoke about their research. They are a pharmacist by training and are interested in pharmacogenomics (PGx): personalization of drug therapy based on genomic sequences of the individual. Deserranno spoke about how […]

Year: 2023