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Reposted by Alexander Karollus

Johannes Hingerl @johahi.bsky.social · 13/10/2025

Happy to share that Flashzoi is now published! We enhanced Borzoi with RoPE & FlashAttention for >3x faster training/inference & 2.4x reduction in memory usage. This brings large-scale genomic analysis and fine-tuning within reach of academic budgets. 📄: doi.org/10.1093/bioi...

doi.org

Flashzoi: an enhanced Borzoi for accelerated genomic analysis

AbstractMotivation. Accurately predicting how DNA sequence drives gene regulation and how genetic variants alter gene expression is a central challenge in

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Reposted by Alexander Karollus

Žiga Avsec @avsecz.bsky.social · 25/06/2025

Excited to launch our AlphaGenome API goo.gle/3ZPUeFX along with the preprint goo.gle/45AkUyc describing and evaluating our latest DNA sequence model powering the API. Looking forward to seeing how scientists use it! @googledeepmind

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Reposted by Alexander Karollus

Gagneur lab @gagneurlab.bsky.social · 03/02/2025

On Wed., Pedro @pedrotomazdasilva.bsky.social talks about interpreting DNA Language models through nucleotide dependency analyses. Capturing functional interactions -maps like this one for an intron- and more: RNA structures, reg motifs,... preprint: www.biorxiv.org/content/10.1...

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Reposted by Alexander Karollus

Johannes Hingerl @johahi.bsky.social · 23/12/2024

Introducing Flashzoi⚡! We’ve upgraded the Borzoi model with rotary pos. encodings and FlashAttention, resulting in a significant speedup with similar or better accuracy for faster variant effect prediction, quicker model development and more efficient genomic analysis www.biorxiv.org/content/10.1...

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Reposted by Alexander Karollus

Gagneur lab @gagneurlab.bsky.social · 23/12/2024

Hey reg genomics folks, here is our little x-mas present: Flashzoi. Borzoi. Just as good. 3x faster. Thumbs up to @johahi.bsky.social for the great initiative, conception & implementation. Big thanks to Johannes Linder, David Kelley and colleagues to have created Borzoi and shared it freely.

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