Excited to share our new paper on predicting gene expression in yeast! We introduce "Shorkie," a supervised ML model that builds off a self-supervised foundation to interpret regulatory DNA. Preprint: www.biorxiv.org/content/10.1...

The poster abstract deadline for the @keystonesymposia.bsky.social AI in Molecular Biology meeting in Santa Fe is coming up on August 21st, so get your submissions in! www.keystonesymposia.org/conferences/...

We’re excited to share a follow-up Borzoi training run and an analysis of the capabilities that emerged. www.biorxiv.org/content/10.1...

I'm excited to share work on a research direction my team has been advancing: connecting machine learning derived genetic variant embeddings to downstream tasks in human genetics. This work was led by the amazing Divyanshi Srivastava! www.biorxiv.org/content/10.1...

1/ DNA sequence models like Borzoi predict gene expression and variant effects across tissues — but how can someone adapt the model to a custom experiment? @drkbio.bsky.social, Johannes Linder and I propose a solution via parameter-efficient fine-tuning (PEFT). www.biorxiv.org/content/10.1...

The short talk and scholarship deadlines for the @keystonesymposia.bsky.social AI in Molecular Biology meeting in September were extended to June 3, so get your last minute submissions in! www.keystonesymposia.org/conferences/...

The short talk and scholarship deadlines for the @keystonesymposia.bsky.social AI in Molecular Biology meeting in September are coming up fast, May 20th. Looking forward to seeing the submissions! www.keystonesymposia.org/conferences/...

Working with a great team to organize @keystonesymposia.bsky.social AI in MolecularBiology, this September! We aimed for a wide range of biological topics, and emphasized speakers who blend sophisticated machine learning with compelling biological questions and analysis.

Regulatory sequence ML has been widely applied to predict substitution SNP effects (to promising results!), but most teams have shied away from indels. www.biorxiv.org/content/10.1...