Alexander Karollus
@karollus.bsky.social
Reposted by Alexander Karollus
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...
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...
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
doi.org
October 13, 2025 at 11:53 AM
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...
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...
Reposted by Alexander Karollus
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
June 25, 2025 at 2:29 PM
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
Reposted by Alexander Karollus
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...
www.biorxiv.org/content/10.1...
February 3, 2025 at 7:53 PM
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...
www.biorxiv.org/content/10.1...
Reposted by Alexander Karollus
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...
December 23, 2024 at 12:16 PM
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...
Reposted by Alexander Karollus
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.
Flashzoi: An enhanced Borzoi model for accelerated genomic analysis https://www.biorxiv.org/content/10.1101/2024.12.18.629121v1
December 23, 2024 at 9:15 AM
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.