Sean McKenzie

Efficient near-telomere-to-telomere assembly of nanopore simplex reads - Nature A genome assembly method called hifiasm (ONT) allows the assembly of chromosomes from telomere to telomere without the need for ultra-long reads, and outperforms conventional methods on most evaluatio...

The most satisfying genome assembler to run, ever. Huge appreciation for the team behind hifiasm 👏

We can’t wait to welcome you back to Old Billingsgate!

Early bird tickets for London Calling 2026 are now available to purchase! Buy yours before 1st Jan and be a part of the biggest Oxford #Nanopore sequencing event of the year.

Click here for tickets: https://bit.ly/4ouoqzR

plsRT: Looking for a motivated postdoc!
Join us at @bcmhgsc.bsky.social to explore the mosaic & somatic landscape of the human genome: structural variants, methylation, and all things @smahtnetwrk.bsky.social
If you like long reads, complex variants & methylation come talk to me!

Trio-barcoded @nanoporetech.com Adaptive Sampling (TBAS) to improve #RareDisease diagnostic at less than 1/2 the $$ & high cov: 76% solve rate across 13 trios inc. two corrections from prev. diagnosis. www.medrxiv.org/content/10.1...
@gregor-research.bsky.social @bcmhgsc.bsky.social
#Research

Autocycler: long-read consensus assembly for bacterial genomes AbstractMotivation. Long-read sequencing enables complete bacterial genome assemblies, but individual assemblers are imperfect and often produce sequence-l

Happy to share that the paper describing Autocycler is now 100% up:
doi.org/10.1093/bioi...
(1/3)

ONT has a temporary bioinformatics position (8 months) open while I'm on maternity leave. Focus will be on microbial genomics but with opportunities to work on projects across the breadth of genomics!
ejnh.fa.em2.oraclecloud.com/hcmUI/Candid...

Usually avoid politics on bluesky, but PBS is a particularly special cause for me: The House will vote this week on a massive cut to public media funding. Your local stations are at risk. Call your Rep. now and urge them to vote NO before it’s too late. bit.ly/3T68Qgw #ProtectMyPublicMedia

It's been a good month for Nanopore assembly preprints! This time metagenomic assembly with nanoMDBG: hundreds of high-quality MAGs from high-complexity communities

Exciting preprint from Haoyu Cheng (not on bluesky?) and @lh3lh3.bsky.social: building amazing Nanopore assemblies just got faster and more accessible! Thrilled to have played a small part in this work!

Application note: Oxford Nanopore sequencing provides superior MAG recovery and strain-level resolution from a complex microbiome | Oxford Nanopore Technologies In this application note, we demonstrate the capabilities of Oxford Nanopore metagenomics by sequencing and analysing the well-characterised ZymoBIOMICS Fecal Reference.

Check out our new Apps Note on metagenomic assembly of the Zymo fecal reference with nanopore sequencing and metaMDBG. Almost 200 Gb of metagenomic sequence data from a single PromethION flowcell, yeilding hundreds of high-quality metagenome assembled genomes: nanoporetech.com/resource-cen...