Mike Vella
@vellamike.bsky.social
Head of Machine Learning at Oxford Nanopore, driving fast algorithms and research to analyze DNA/RNA/Proteins.
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.
August 16, 2025 at 6:09 PM
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.
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...
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
June 16, 2025 at 12:21 PM
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...
Read it here: epi2me.nanoporetech.com/chromatin-ac...
PolyA tail lengths can be accurately estimated using Nanopore dRNA
May 22, 2025 at 12:13 PM
PolyA tail lengths can be accurately estimated using Nanopore dRNA
We have developed workflows for Plasmid precursor quality control
May 22, 2025 at 12:12 PM
We have developed workflows for Plasmid precursor quality control
Oxford Nanopore simplifies RNA QC in GMP
May 22, 2025 at 12:11 PM
Oxford Nanopore simplifies RNA QC in GMP
GMP QC is laborious and complex
May 22, 2025 at 12:10 PM
GMP QC is laborious and complex
mRNA shows huge promise in personalised cancer vaccines
May 22, 2025 at 12:08 PM
mRNA shows huge promise in personalised cancer vaccines
Next up - Chris Alder discusses QC workflows in biopharma
May 22, 2025 at 12:07 PM
Next up - Chris Alder discusses QC workflows in biopharma
New for 2025 in EPI2ME - Teloseq, trio and pharmacogenomics workflows
May 22, 2025 at 12:04 PM
New for 2025 in EPI2ME - Teloseq, trio and pharmacogenomics workflows
Single cell workflows now adds the ability to detect gene fusions
May 22, 2025 at 12:03 PM
Single cell workflows now adds the ability to detect gene fusions
Taxonomic classification
May 22, 2025 at 12:02 PM
Taxonomic classification
EPI2ME workflows are next flow based you can upload your own
May 22, 2025 at 12:01 PM
EPI2ME workflows are next flow based you can upload your own
2ME format allows users to share workflows offline - code available on GitHub
May 22, 2025 at 12:01 PM
2ME format allows users to share workflows offline - code available on GitHub
EPI2ME free to download and runs on Windows, Mac and Linux
May 22, 2025 at 11:59 AM
EPI2ME free to download and runs on Windows, Mac and Linux
Sarah Grifftihs next up with updates on EIPI2ME
May 22, 2025 at 11:58 AM
Sarah Grifftihs next up with updates on EIPI2ME
We observe SOTA results in INDEL F1 scores for GIAB benchmarks, particularly big improvements in long INDELs
May 22, 2025 at 11:55 AM
We observe SOTA results in INDEL F1 scores for GIAB benchmarks, particularly big improvements in long INDELs
Dorado variant is a completely new architecture - not a port of an existing variant caller
May 22, 2025 at 11:54 AM
Dorado variant is a completely new architecture - not a port of an existing variant caller
Dorado v1.0.0 includes a preview release of our very own variant caller
May 22, 2025 at 11:53 AM
Dorado v1.0.0 includes a preview release of our very own variant caller
Dorado polish goes hand in hand with hifiasm- >2Q improvement to assemblies
May 22, 2025 at 11:52 AM
Dorado polish goes hand in hand with hifiasm- >2Q improvement to assemblies
Dorado polish uses much more information than before, leading to higher quality assembly polishing.
May 22, 2025 at 11:51 AM
Dorado polish uses much more information than before, leading to higher quality assembly polishing.
LSK-only Nanopore reads able to produce 23 gapless chromosomes , 10 scaffolded, and N50>130Mb
May 22, 2025 at 11:50 AM
LSK-only Nanopore reads able to produce 23 gapless chromosomes , 10 scaffolded, and N50>130Mb
Huge strides have been made in assembly. Nanopore-only T2T assembly is now feasible and will soon be routine.
May 22, 2025 at 11:49 AM
Huge strides have been made in assembly. Nanopore-only T2T assembly is now feasible and will soon be routine.
Many ways of answering the question “what is the genotype of my sample?”
May 22, 2025 at 11:47 AM
Many ways of answering the question “what is the genotype of my sample?”
Up next - @rwinds.bsky.social discusses the latest in variant calling and assembly
May 22, 2025 at 11:45 AM
Up next - @rwinds.bsky.social discusses the latest in variant calling and assembly
Base calling obeys scaling laws in deep learning - a Q28 base caller using standard chemistry is now available on demand.
May 22, 2025 at 11:43 AM
Base calling obeys scaling laws in deep learning - a Q28 base caller using standard chemistry is now available on demand.