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Mike Vella

@vellamike.bsky.social

290 followers 47 following 42 posts

Head of Machine Learning at Oxford Nanopore, driving fast algorithms and research to analyze DNA/RNA/Proteins.

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Mike Vella @vellamike.bsky.social · Aug 16

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 @vellamike.bsky.social · Jun 16

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/chromatin-ac...

Chromatin accessibility data and tool release

Functional epigenomics uses high-throughput sequencing data to study how epigenetic modifications…

epi2me.nanoporetech.com

Mike Vella @vellamike.bsky.social · May 22

PolyA tail lengths can be accurately estimated using Nanopore dRNA

Mike Vella @vellamike.bsky.social · May 22

We have developed workflows for Plasmid precursor quality control

Mike Vella @vellamike.bsky.social · May 22

Oxford Nanopore simplifies RNA QC in GMP

Mike Vella @vellamike.bsky.social · May 22

GMP QC is laborious and complex

Mike Vella @vellamike.bsky.social · May 22

mRNA shows huge promise in personalised cancer vaccines

Mike Vella @vellamike.bsky.social · May 22

Next up - Chris Alder discusses QC workflows in biopharma

Mike Vella @vellamike.bsky.social · May 22

New for 2025 in EPI2ME - Teloseq, trio and pharmacogenomics workflows

Mike Vella @vellamike.bsky.social · May 22

Single cell workflows now adds the ability to detect gene fusions

Mike Vella @vellamike.bsky.social · May 22

Taxonomic classification

Mike Vella @vellamike.bsky.social · May 22

EPI2ME workflows are next flow based you can upload your own

Mike Vella @vellamike.bsky.social · May 22

2ME format allows users to share workflows offline - code available on GitHub

Mike Vella @vellamike.bsky.social · May 22

EPI2ME free to download and runs on Windows, Mac and Linux

Mike Vella @vellamike.bsky.social · May 22

Sarah Grifftihs next up with updates on EIPI2ME

Mike Vella @vellamike.bsky.social · May 22

We observe SOTA results in INDEL F1 scores for GIAB benchmarks, particularly big improvements in long INDELs

Mike Vella @vellamike.bsky.social · May 22

Dorado variant is a completely new architecture - not a port of an existing variant caller

Mike Vella @vellamike.bsky.social · May 22

Dorado v1.0.0 includes a preview release of our very own variant caller

Mike Vella @vellamike.bsky.social · May 22

Dorado polish goes hand in hand with hifiasm- >2Q improvement to assemblies

Mike Vella @vellamike.bsky.social · May 22

Dorado polish uses much more information than before, leading to higher quality assembly polishing.

Mike Vella @vellamike.bsky.social · May 22

LSK-only Nanopore reads able to produce 23 gapless chromosomes , 10 scaffolded, and N50>130Mb

Mike Vella @vellamike.bsky.social · May 22

Huge strides have been made in assembly. Nanopore-only T2T assembly is now feasible and will soon be routine.

Mike Vella @vellamike.bsky.social · May 22

Many ways of answering the question “what is the genotype of my sample?”

Mike Vella @vellamike.bsky.social · May 22

Up next - @rwinds.bsky.social discusses the latest in variant calling and assembly

Mike Vella @vellamike.bsky.social · May 22

Base calling obeys scaling laws in deep learning - a Q28 base caller using standard chemistry is now available on demand.