Ektefaie, Yasha

6 publications

ICLR 2026 Controllable Sequence Editing for Biological and Clinical Trajectories Michelle M Li, Kevin Li, Yasha Ektefaie, Ying Jin, Yepeng Huang, Shvat Messica, Tianxi Cai, Marinka Zitnik

NeurIPS 2025 Evolutionary Reasoning Does Not Arise in Standard Usage of Protein Language Models Yasha Ektefaie, Andrew Shen, Lavik Jain, Maha Farhat, Marinka Zitnik

ICML 2025 PertEval-scFM: Benchmarking Single-Cell Foundation Models for Perturbation Effect Prediction Aaron Wenteler, Martina Occhetta, Nikhil Branson, Victor Curean, Magdalena Huebner, William Dee, William Connell, Siu Pui Chung, Alex Hawkins-Hooker, Yasha Ektefaie, César Miguel Valdez Córdova, Amaya Gallagher-Syed

ICLRW 2025 Phyla: Towards a Foundation Model for Phylogenetic Inference Andrew Shen, Yasha Ektefaie, Lavik Jain, Maha Farhat, Marinka Zitnik

ICLRW 2025 Reinforcement Learning on Structure-Conditioned Categorical Diffusion for Protein Inverse Folding Yasha Ektefaie, Olivia Viessmann, Siddharth Narayanan, Drew Dresser, J. Mark Kim, Armen Mkrtchyan

NeurIPSW 2024 PertEval-scFM: Benchmarking Single-Cell Foundation Models for Perturbation Effect Prediction Aaron Wenteler, Martina Occhetta, Nikhil Branson, Magdalena Huebner, William Dee, Victor Curean, William Connell, Siu Pui Chung, Yasha Ektefaie, Amaya Gallagher-Syed, César Miguel Valdez Córdova