Yasha Ektefaie

According to our database, Yasha Ektefaie authored at least 11 papers between 2022 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2026

PhylaFlow: Hybrid Flow Matching in Billera-Holmes-Vogtmann Tree Space for Phylogenetic Inference.

Yasha Ektefaie, Leo Cui, Shrey Jain, Marinka Zitnik, Pardis Sabeti

CoRR, May, 2026

Evaluating Relational Reasoning in LLMs with REL.

Lukas Fesser, Yasha Ektefaie, Ada Fang, Sham M. Kakade, Marinka Zitnik

CoRR, April, 2026

2025

Controllable Sequence Editing for Counterfactual Generation.

Michelle M. Li, Kevin Li, Yasha Ektefaie, Shvat Messica, Marinka Zitnik

CoRR, February, 2025

Evolutionary Reasoning Does Not Arise in Standard Usage of Protein Language Models.

Yasha Ektefaie, Andrew Shen, Lavik Jain, Maha R. Farhat, Marinka Zitnik

Proceedings of the Advances in Neural Information Processing Systems 38: Annual Conference on Neural Information Processing Systems 2025, 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

Proceedings of the Forty-second International Conference on Machine Learning, 2025

2024

Evaluating generalizability of artificial intelligence models for molecular datasets.

Yasha Ektefaie, Andrew Shen, Daria Bykova, Maximillian G. Marin, Marinka Zitnik, Maha R. Farhat

Nat. Mac. Intell., 2024

Reinforcement learning on structure-conditioned categorical diffusion for protein inverse folding.

Yasha Ektefaie, Olivia Viessmann, Siddharth Narayanan, Drew Dresser, J. Mark Kim, Armen Mkrtchyan

CoRR, 2024

Empowering Biomedical Discovery with AI Agents.

Shanghua Gao, Ada Fang, Yepeng Huang, Valentina Giunchiglia, Ayush Noori, Jonathan Richard Schwarz, Yasha Ektefaie, Jovana Kondic, Marinka Zitnik

CoRR, 2024

2023

Multimodal learning with graphs.

Yasha Ektefaie, George Dasoulas, Ayush Noori, Maha R. Farhat, Marinka Zitnik

Nat. Mac. Intell., April, 2023

Is Ignorance Bliss? The Role of Post Hoc Explanation Faithfulness and Alignment in Model Trust in Laypeople and Domain Experts.

Tessa Han, Yasha Ektefaie, Maha R. Farhat, Marinka Zitnik, Himabindu Lakkaraju

CoRR, 2023

2022

Geometric multimodal representation learning.

Yasha Ektefaie, George Dasoulas, Ayush Noori, Maha R. Farhat, Marinka Zitnik

CoRR, 2022