Andrew Carroll

I am delighted to present with @hannespetur.bsky.social our new study on the Icelandic pangenome reference HPRC-ICE. This work goes all the way from pangenome construction to disease association! (1/7) www.nature.com/articles/s41...

How good is MiniBWA, the successor to BWA? To test it, I ran MiniBWA on sequencing from 76 different species, comparing mapping speed, rate and accuracy with BWA MEM. In short, it's really good. If you map short reads, it's well worth your time. andrewcarroll.github.io/2026/06/30/t...

This blog shares some thoughts on protein and genome foundation models. The first part explains some of the concepts by training models for example tasks. The second part is opinion on the state of the field. andrewcarroll.github.io/2026/05/26/g...

What if you could improve small variant accuracy, CNV inference, and interpretability of your HiFi WGS data by taking a different approach to read mapping? Our new preprint describes portello, a method which demonstrates the potential for such improvements. (1/5)

Lab tour and takeaways: www.youtube.com/watch?v=nS2o...

I wrote up some thoughts on the automation of lab work, in particular how it relates to how people will work in the lab. In short, it will deliver a lot of value for assays run at scale, but there is a long tail of experiments where humans are essential. andrewcarroll.github.io/2026/02/09/f...

Thanks to the support of @wcs.org and Google Research, we have sequenced and assembled the genomes of nine endangered species, with more on the way! To learn more: blog.google/innovation-a...

This blog talks about the great work of the @ebpgenome.bsky.social. To support it Google.org has funded sequencing and open release of 13 genomes, with a $3M commit to sequence 150 more and develop methods to improve assembly finishing and other bottlenecks. blog.google/innovation-a...

The killing of Alex Pretti is a heartbreaking tragedy. It should also be a wake-up call to every American, regardless of party, that many of our core values as a nation are increasingly under assault.

I've been thinking about the "virtual cell" concept and wanted to write up a few thoughts. Specifically on how I think the prior experience in GWAS informs the most likely way these models will be useful. andrewcarroll.github.io/2025/12/23/t...

🐧We researched one of the world’s rarest #penguins. The yellow‑eyed penguin (aka hoiho/takaraka) isn’t one homogeneous species after all! www.biorxiv.org/content/10.1... #hoiho #conservation #genomics #birds #nzwildlife #endangered #wildlife #nature

Accurate somatic small variant discovery for multiple sequencing technologies with DeepSomatic www.nature.com/articles/s41... (read free: rdcu.be/eLny0) github.com/google/deeps...

Delighted to finally announce a preprint describing the Q100 project! “A complete diploid human genome benchmark for personalized genomics” For which we finished HG002 to near-perfect accuracy: www.biorxiv.org/content/10.1... 🧵[1/14]

I'll be speaking in this webinar (go.roche.com/sbx-d) on September 10, where I'll share our benchmarks and observations for Roche's SBX sequencing instrument, as well as models developed by our team for SBX data.

Incredibly moving Justin Trudeau remarks: "We have fought and died alongside you....During your darkest hours...we were always there. Standing with you, grieving with you, the American people....Canadians are a little perplexed as to why our closest friends and neighbors are choosing to target us."

How do we make a pangenome maximally relevant for the study of a new sample? www.biorxiv.org/content/10.1...

Proud of Ayse Keskus and Asher Bryant in my group for making this happen! This work is a collaboration with Children's Mercy, UCSC and Google Health - who are also releasing the first version of DeepSomatic today: github.com/google/deeps...

Best resource for getting extracellular domain localization from Ensembl gene/protein IDs? I tried the subcellular locations in HPA but the membrane annotation is mostly fully intracellular proteins. 🧪🧬🖥️🔬