Alan Amin
@alannawzadamin.bsky.social
Faculty fellow at NYU working with @andrewgwils.bsky.social. Statistics & machine learning for proteins, RNA, DNA.
Prev: @jura.bsky.social, PhD with Debora Marks
Website: alannawzadamin.github.io
Prev: @jura.bsky.social, PhD with Debora Marks
Website: alannawzadamin.github.io
Pinned
Alan Amin
@alannawzadamin.bsky.social
· Jun 25
We can make population genetics studies more powerful by building priors of variant effect size from features like binding. But we’ve been stuck on linear models! We introduce DeepWAS to learn deep priors on millions of variants! #ICML2025 Andres Potapczynski, @andrewgwils.bsky.social 1/7
We can make population genetics studies more powerful by building priors of variant effect size from features like binding. But we’ve been stuck on linear models! We introduce DeepWAS to learn deep priors on millions of variants! #ICML2025 Andres Potapczynski, @andrewgwils.bsky.social 1/7
June 25, 2025 at 2:03 PM
We can make population genetics studies more powerful by building priors of variant effect size from features like binding. But we’ve been stuck on linear models! We introduce DeepWAS to learn deep priors on millions of variants! #ICML2025 Andres Potapczynski, @andrewgwils.bsky.social 1/7
There are many domain-specific noise processes for discrete diffusion, but masking dominates! Why? We show masking exploits a key property of discrete diffusion, which we use to unlock the potential of those structured processes and beat masking! w/ Nate Gruver and @andrewgwils.bsky.social 1/7
June 16, 2025 at 2:20 PM
There are many domain-specific noise processes for discrete diffusion, but masking dominates! Why? We show masking exploits a key property of discrete diffusion, which we use to unlock the potential of those structured processes and beat masking! w/ Nate Gruver and @andrewgwils.bsky.social 1/7
Reposted by Alan Amin
Thrilled to announce that I am joining DTU in Copenhagen in the fall, as an assistant professor of chemistry.
My research group will focus on fundamental methodology in machine learning for molecules.
My research group will focus on fundamental methodology in machine learning for molecules.
May 29, 2025 at 5:04 PM
Thrilled to announce that I am joining DTU in Copenhagen in the fall, as an assistant professor of chemistry.
My research group will focus on fundamental methodology in machine learning for molecules.
My research group will focus on fundamental methodology in machine learning for molecules.
Reposted by Alan Amin
Want to improve your protein or genomic language model’s performance at zero-shot variant effect prediction? We propose a simple adjustment to likelihood-based predicton
New preprint in collaboration with @paulinanunezv.bsky.social supervised by @jonnyfrazer.bsky.social and Mafalda Dias – we propose a simple approach to improving zero-shot variant effect prediction in pre-existing protein and genome language models: 🧶 1/n
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
From Likelihood to Fitness: Improving Variant Effect Prediction in Protein and Genome Language Models
Generative models trained on natural sequences are increasingly used to predict the effects of genetic variation, enabling progress in therapeutic design, disease risk prediction, and synthetic biolog...
www.biorxiv.org
May 26, 2025 at 5:33 PM
Want to improve your protein or genomic language model’s performance at zero-shot variant effect prediction? We propose a simple adjustment to likelihood-based predicton
How do you go from a hit in your antibody screen to a suitable drug? Now introducing CloneBO: we optimize antibodies in the lab by teaching a generative model how we optimize them in our bodies!
w/ Nat Gruver, Yilun Kuang, Lily Li, @andrewgwils.bsky.social and the team at Big Hat! 1/7
w/ Nat Gruver, Yilun Kuang, Lily Li, @andrewgwils.bsky.social and the team at Big Hat! 1/7
December 17, 2024 at 4:01 PM
How do you go from a hit in your antibody screen to a suitable drug? Now introducing CloneBO: we optimize antibodies in the lab by teaching a generative model how we optimize them in our bodies!
w/ Nat Gruver, Yilun Kuang, Lily Li, @andrewgwils.bsky.social and the team at Big Hat! 1/7
w/ Nat Gruver, Yilun Kuang, Lily Li, @andrewgwils.bsky.social and the team at Big Hat! 1/7
New model trained on new dataset of nearly a million evolving antibody families at AIDrugX workshop Sunday at 4:20 pm (#76) #Neurips! Collab between @andrewgwils.bsky.social and BigHatBio. Stay tuned for full thread on how we used the model to optimize antibodies in the lab in coming days!
December 14, 2024 at 4:32 PM
New model trained on new dataset of nearly a million evolving antibody families at AIDrugX workshop Sunday at 4:20 pm (#76) #Neurips! Collab between @andrewgwils.bsky.social and BigHatBio. Stay tuned for full thread on how we used the model to optimize antibodies in the lab in coming days!