Amirali Aghazadeh
@amiralia.bsky.social
ML/AI/CS/Information+Science | Assistant Prof. @GeorgiaTech | @UCBerkeley @Stanford @RiceECE alum https://amirmohan.github.io/
Pinned
Amirali Aghazadeh
@amiralia.bsky.social
· Aug 27
Sparse Autoencoders for Low-$N$ Protein Function Prediction and Design
Predicting protein function from amino acid sequence remains a central challenge in data-scarce (low-$N$) regimes, limiting machine learning-guided protein design when only small amounts of assay-labe...
arxiv.org
Our new work on the utility of SAEs in low-N protein function prediction and design arxiv.org/abs/2508.185...
Reposted by Amirali Aghazadeh
Excited to announce our paper, SHAP zero, has been accepted into NeurIPS 2025!
SHAP zero takes the first steps toward extracting biological insights at scale from machine learning models by amortizing the cost of explanations across large-scale biological datasets.
SHAP zero takes the first steps toward extracting biological insights at scale from machine learning models by amortizing the cost of explanations across large-scale biological datasets.
September 22, 2025 at 3:09 PM
Excited to announce our paper, SHAP zero, has been accepted into NeurIPS 2025!
SHAP zero takes the first steps toward extracting biological insights at scale from machine learning models by amortizing the cost of explanations across large-scale biological datasets.
SHAP zero takes the first steps toward extracting biological insights at scale from machine learning models by amortizing the cost of explanations across large-scale biological datasets.
Our new work on the utility of SAEs in low-N protein function prediction and design arxiv.org/abs/2508.185...
Sparse Autoencoders for Low-$N$ Protein Function Prediction and Design
Predicting protein function from amino acid sequence remains a central challenge in data-scarce (low-$N$) regimes, limiting machine learning-guided protein design when only small amounts of assay-labe...
arxiv.org
August 27, 2025 at 7:08 PM
Our new work on the utility of SAEs in low-N protein function prediction and design arxiv.org/abs/2508.185...
🚀🚀🚀 Super excited that our Agentic AI for Origins of Life is covered in a story in journal Nature. #ai #astroagents
Team of collaborative AI 'scientists' enlisted to probe the origins of life in the Universe
www.nature.com/articles/d41... - with @amiralia.bsky.social and @miquai.bsky.social
www.nature.com/articles/d41... - with @amiralia.bsky.social and @miquai.bsky.social
AI scientist ‘team’ joins the search for extraterrestrial life
The collaborative system generated hundreds of hypotheses relating to the origins of life in the Universe.
www.nature.com
May 2, 2025 at 5:49 PM
🚀🚀🚀 Super excited that our Agentic AI for Origins of Life is covered in a story in journal Nature. #ai #astroagents
Reposted by Amirali Aghazadeh
Research involves day science and night science, requiring you to become good at both. Day science proceeds in logical steps and specializes in hypothesis testing, but to generate new ideas we pop out to the creative night science world, where leaps among ideas are made possible.
December 28, 2024 at 6:28 PM
Research involves day science and night science, requiring you to become good at both. Day science proceeds in logical steps and specializes in hypothesis testing, but to generate new ideas we pop out to the creative night science world, where leaps among ideas are made possible.
Great read on ruggedness of protein fitness landscapes
dealing with the ruggedness of protein fitness landscapes is perhaps the most challenging aspect of protein design and engineering - here we have written a short perspective about it - it's complicated and not perfectly understood but very interesting!
arxiv.org/abs/2411.12957
arxiv.org/abs/2411.12957
Computational and Experimental Exploration of Protein Fitness Landscapes: Navigating Smooth and Rugged Terrains
Proteins evolve through complex sequence spaces, with fitness landscapes serving as a conceptual framework that links sequence to function. Fitness landscapes can be smooth, where multiple similarly a...
arxiv.org
November 26, 2024 at 12:01 PM
Great read on ruggedness of protein fitness landscapes
Reposted by Amirali Aghazadeh
Here’s the updated Computational Biology Starter Pack! Let me know if you'd like to be included.
go.bsky.app/QVPoZXp
go.bsky.app/QVPoZXp
November 24, 2024 at 4:33 PM
Here’s the updated Computational Biology Starter Pack! Let me know if you'd like to be included.
go.bsky.app/QVPoZXp
go.bsky.app/QVPoZXp
Reposted by Amirali Aghazadeh
I must admit that this annotated Nature abstract remains a useful recipe for constructing a summary paragraph. I show it to my students every time we get started.
November 19, 2024 at 4:42 PM
I must admit that this annotated Nature abstract remains a useful recipe for constructing a summary paragraph. I show it to my students every time we get started.
Reposted by Amirali Aghazadeh
Research funded by NIH generated $2.46 in economic activity for every $1 of funding in 2023 [a total of $92.9 billion]
www.fiercebiotech.com/research/rep...
www.fiercebiotech.com/research/rep...
Report: Every dollar of NIH research funding doubles in economic returns
Research funded by the National Institutes of Health (NIH) generated $2.46 in economic activity for every $1 of funding in 2023, a total of $92.9 billion, according to an
www.fiercebiotech.com
November 17, 2024 at 11:56 PM
Research funded by NIH generated $2.46 in economic activity for every $1 of funding in 2023 [a total of $92.9 billion]
www.fiercebiotech.com/research/rep...
www.fiercebiotech.com/research/rep...
Reposted by Amirali Aghazadeh
We strongly suggest that academic publishers and other platforms that host research rapidly implement a Share to Bluesky button for their articles. Here's how:
docs.bsky.app/docs/advance...
#AcademicSky #HigherEd #Altmetrics
docs.bsky.app/docs/advance...
#AcademicSky #HigherEd #Altmetrics
Action Intent Links | Bluesky
Authors, websites, and apps can use action intent links to implement "Share on Bluesky" buttons, or similar in-app actions. Logged-in users will be directed to the corresponding action view in the Blu...
docs.bsky.app
November 18, 2024 at 2:48 PM
We strongly suggest that academic publishers and other platforms that host research rapidly implement a Share to Bluesky button for their articles. Here's how:
docs.bsky.app/docs/advance...
#AcademicSky #HigherEd #Altmetrics
docs.bsky.app/docs/advance...
#AcademicSky #HigherEd #Altmetrics
Reposted by Amirali Aghazadeh
This pack is now up to 67 people, broadly in AI and advanced data for science. Follow along, and forward me others who should be there! 🦋🦋
go.bsky.app/JeFdryY
go.bsky.app/JeFdryY
November 16, 2024 at 4:32 PM
This pack is now up to 67 people, broadly in AI and advanced data for science. Follow along, and forward me others who should be there! 🦋🦋
go.bsky.app/JeFdryY
go.bsky.app/JeFdryY
Reposted by Amirali Aghazadeh
I'm looking forward to engaging on #chemsky. Missed #chemtwitter!
November 13, 2024 at 9:31 PM
I'm looking forward to engaging on #chemsky. Missed #chemtwitter!