Senior Director of Machine Learning at @nanopore
Oxford, England
Joined January 2009
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Yesterday in Malta the season for Dorado (Lampuki in Maltese) fishing opened, which is fantastic luck for me as I can enjoy a delicious dinner! My favourite basecaller and favourite fish share the same name.
Mike Vella retweeted
Impressive 🎉 I had to test that on our workstation and I can confirm that it is fast⚡️
In this blog post, we show how chromatin accessibility can be profiled with minimal processing using nanopore sequencing – preserving native structure and capturing rich signal.
Read it here: epi2me.nanoporetech.com/chro…
Mike Vella retweeted
Initial release of Pomfret for methylation assisted phase block joining for more contiguous phased assemblies without any additional library prep from @nanopore data. Such amazing work from @0xfxfxf ! #NanoporeConf
github.com/nanoporetech/pomf…
Really enjoyed this presentation by Gabriel Wagner-Lichtenegger (Medical University of Graz) showing how advances like Dorado Polish & V5 basecalling models make @nanopore data robust, reproducible & ready for genotyping.
We’re just getting started!
youtube.com/watch?v=u3mJTArk…
Mike Vella retweeted
🚀 Exciting News from Singapore! 🚀
Scientists at A*STAR's Genome Institute of Singapore (@astar_gis) have unveiled one of the world's largest long-read RNA sequencing datasets! 🌍🔬 This groundbreaking resource, known as SG-NEx, is set to revolutionize disease research by providing unprecedented insights into RNA complexity.
Key Highlights:
+ 750 million long RNA reads across 14 human cell lines
+ Enhanced detection of complex RNA features like cancer-related fusion transcripts
+ Freely accessible via the AWS Open Data Registry
This dataset will accelerate biomarker discovery and precision medicine, paving the way for next-gen diagnostics and therapies. Kudos to the team at A*STAR GIS - @JonathanGoeke, @chenying927, Andre Sim, Kristin Ma, Min Hao Ling, Nicolaï Hoffmann, Yuk Kei Wan! 👏🔬
Learn more: a-star.edu.sg/gis/news-event…
#Genomics #PrecisionMedicine
Telomere-to-telomere de novo assembly from standard ONT reads (LSK114, Simplex).
A really exciting advance—makes high-quality assembly practical for population-scale sequencing!
Preprint from @ChengChhy, @lh3lh3 and colleagues
biorxiv.org/content/10.1101/…
Dorado polish can output assemblies in FASTQ format with quality scores. @rrwick 's analysis shows these scores are well correlated with base call reliability, meaning they could help reduce false positives in variant calling.
rrwick.github.io/2025/02/19/…
Mike Vella retweeted
BRUH
My plasmid samples arrived at 8am on a ***saturday***
Delivery to data in 50mins?!
New Dorado release (v0.9.0) – and it's big!
🚀 Dorado polish (experimental) for improving draft assemblies – faster & more accurate than Medaka
⚡ Faster modified base calling models
🔧 Usability & accuracy improvements: PolyA, Barcoding, 6mA
github.com/nanoporetech/dora…
Mike Vella retweeted
Hifiasm 0.21.0 has been released. It now has a beta module for direct assembly of ONT R10 simplex reads. Initial tests with regular simplex reads show very promising results! github.com/chhylp123/hifiasm…
Exciting news! The latest hifiasm release from @ChengChhy and @lh3lh3 adds beta support for @nanopore simplex R10 reads. Initial results look very promising. 🚀
Check it out: github.com/chhylp123/hifiasm…"
At @nanopore , we've used ML to achieve remarkable advancements in basecalling. Now, we're focusing on driving further improvements in consensus and variant calling, enhancing both speed and accuracy. Watch my colleague Rhydian update on our progress: youtube.com/watch?v=IB6DmU40…
Mike Vella retweeted
Incredible milestone: @nanopore announces landmark UK Government partnership to advance genomics-driven healthcare innovation in the UK
Initial program will launch rapid pathogen-agnostic surveillance across 30 NHS sites for public health & biosecurity
nanoporetech.com/news/oxford…
Mike Vella retweeted
v0.8.1 dorado bug fix release 🐛⛔️
github.com/nanoporetech/dora…
Mike Vella retweeted
The most incredible thing about Caravaggio is that it seems he invented CGI 500 years before it even existed 👇
Direct native RNA (no cDNA!) sequencing from @nanopore is revolutionising RNA sequencing. It already achieves 19.4 Q accuracy and can detect modifications like m6a, m5c, pseudouridine and inosine. Watch my colleague Bronya Boydon explain how it works.
youtube.com/watch?v=9qiClBOx…
In the last few months at @nanopore, we've made major strides in improving the accuracy of native DNA sequencing in bacteria, a challenging task due to bacterial DNA modifications. Watch my colleague Katherine Lawrence dive into the details:
youtube.com/watch?v=rRFREd8q…
