Author

Amirali Aghazadeh

h-index 10 View on Semantic Scholar

We have 3 of 44 papers

We haven’t gathered this author’s papers yet. Follow them and we’ll fetch their work.

Not the right person? Other researchers publish under this name.

#machine learning May 2026

Structure-Aware Masking for Protein Representation Learning

Bucket Masking is introduced, a structure-aware masking strategy that selects groups of residues based on their proximity in three-dimensional space, preferentially masking structurally coupled regions during training, and enables up to a 14% improvement over standard random masking in downstream protein fitness predic...

Thomas Walton, Ayan Goel, Amirali Aghazadeh · arXiv.org · 1 citation

Open access Jul 2026

Protein fitness landscapes are simpler under evolutionary distributions

An evolution-aware spectral framework is developed that incorporates the evolutionary distribution of amino acids at each sequence position, inducing an orthogonal decomposition under the evolutionary measure while preserving efficient spectral algorithms for scalable analysis and enables more accurate recovery of fitn...

Darin Tsui, Kunal Talreja, Amirali Aghazadeh · bioRxiv · 2 citations

#machine learning Preprint Sep 2026

Learning Task-Specific Antibody Representations via Function-Aware Masking

This work introduces function-aware masking, a family of pretraining algorithms that align mask placement with specific functional priors (e.g., from IMGT annotations or structure predictions) to shape the learned representation space, and demonstrates that informed mask placement provides a parameter-free mechanism fo...

Ayan Goel, Thomas Walton, Amirali Aghazadeh · 0 citations