📢📢 Announcing the Human Genome Sciences track - a brand new addition to the Yale graduate program that aims to train the next generation of scientists in the areas of human genomics, genetics, and bioinformatics. medicine.yale.edu/bbs/tracks/hum…

Creative use of UK Biobank WGS data: fishing out non-human DNA reads from WGS data to measure latent Epstein-Barr viral infection. The plot below shows phenome-wide associations of "EBV DNAemia" in half a million individuals. Nyeo et al. bioRxiv 2025 biorxiv.org/content/10.110…

To all of the folk saying we need deep learning for RNA-seq prediction...

✅ Published in nature today, the paper describing the initial whole-genome sequencing analysis of 500,000 UK Biobank participants. nature.com/articles/s4158…

This blog highlights the recent publication of DeepPolisher, but it was also a nice opportunity to write about research work to a more general audience and frame against the backdrop of how sequencing works, why we make genome assemblies, and how we improve and use them.

We often talk about pangenome reference but what does "reference" mean? If it means the whole graph, what is a variant? My collaborators Pouria and Luke give a clean answer: the reference is a spanning tree including GRCh38 and variants are leftover edges. See preprint for more.

Job Alert: A stealth startup focused on non-cancer diagnostics is keen to hire a deep learning for genomics/bio engineer. I am an advisor for the startup & closely involved. Please see the job description below and get in touch if interested. Plz RT

I’m excited to share our new nature paper 📝, which provides strong evidence that the walkability of our built environment matters a great deal to our physical activity and health. Details in thread.🧵 nature.com/articles/s4158…

The Python Documentary by Cult.Repo (formerly Honeypot) will premiere tomorrow at 10am PDT / 19:00 CET. We'll have an online release party / live chat (with the director, myself and others) youtube.com/watch?v=GfH4QL…

Now published in GigaScience with minor improvements: academic.oup.com/gigascience/ar… * Download: zenodo.org/records/149035… * More info: github.com/lh3/panmask

Do you know ~60% of human SVs fall in ~1% of GRCh38? See our new preprint: arxiv.org/abs/2509.23057 and the companion blog post on how we started this project and longdust: lh3.github.io/2025/09/29/on-…. Work with Qian Alvin Qin

Pre-phasing long reads improves structural variant genotyping academic.oup.com/bioinformatics… 🧬🖥️🧪 github.com/Zilong-Li/SVUPP

My Journal Club on Enformer, an AI model that predicts gene expression from DNA, is out in Nature Reviews Genetics This is a high-level look at how Enformer advanced seq2fun AI, and the challenges that remain in modeling gene regulation. (Easy 5 min read) 🔗 tinyurl.com/35ybdtv6

Just found out #Nextflow supports job arrays 😅 Add `array <integer>` inside the `process { ... }` block, and it fixes “You have reached the rate limit of jobs submitted per hour” error.

579 high-quality human genomes from Human Pangenome Reference Consortium, Arab Pangenome and individual papers (CHM13, CN1, KSA001, I002C, YAO and KOREF1). Sequences available in the AGC format (3.7GB) and FM-index in the ropebwt3 format (20.3GB). For details, see github.com/lh3/human-asm

I am looking for a postdoc to develop high-performance algorithms in computational genomics. Email or DM me if interested. For more information, see hlilab.github.io/vacancies. RTs appreciated!

My free solo ascent of Taipei 101 in Taiwan is coming up soon - and you can watch it LIVE on Netflix. January 23 @ 8 PM ET / 5 PM PT. Exciting!!

ALEX HONNOLD AFTER COMPLETING HIS FREE SOLO OF TAIPEI 101: "Sick." The 101 story climb took 1 hour and 35 minutes #SkyscraperLIVE

Alex Honnold taking a selfie at the top of Taipei 101 after free soloing the skyscraper. UNBELIEVABLE!!! #SkyscraperLIVE

Looking for a postdoc to build my new lab at TGen (Phoenix, AZ) focused on pangenome methods for cancer and complex disease. Full stack — from pangenome assembly and compression to association studies and somatic variant discovery. You interested? guarracinolab.github.io/#join