Publication BioAgents: Democratizing Bioinformatics Analysis with Multi-Agent Systems Nikita Mehandru, Amanda K. Hall, Olesya Melnichenko, Yulia Dubinina, Daniel Tsirulnikov, David Bamman, Ahmed Alaa, Scott Saponas, V. Malladi January 2025
Publication Benchmarking uncertainty quantification for protein engineering Kevin P. Greenman, Ava P. Amini, Kevin Kaichuang Yang PLOS Computational Biology | January 2025, Vol 21
Publication AI-Enhanced Sensemaking: Exploring the Design of a Generative AI-Based Assistant to Support Genetic Professionals Angela Mastrianni, Hope Twede, Aleksandra Sarcevic, Jeremiah (Miah) Wander, C. Austin-Tse, Scott Saponas, Heidi L. Rehm, Ashley Conard, Amanda K. Hall December 2024
Publication Evaluating the role of pre-training dataset size and diversity on single-cell foundation model performance Alan DenAdel, Madeline Hughes, Akshaya Thoutam, Anay Gupta, Nicolo Fusi, Andrew W. Navia, Srivatsan Raghavan, Peter S. Winter, Ava P. Amini, Lorin Crawford bioRxiv | December 2024 Project
Publication Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries Zelalem Gero, Chandan Singh, Yiqing Xie, Sheng Zhang, Tristan Naumann, Jianfeng Gao, Hoifung Poon NeurIPS 2024 | December 2024
Publication MAIRA-Seg: Enhancing Radiology Report Generation with Segmentation-Aware Multimodal Large Language Models Harshita Sharma, Valentina Salvatelli, Shaury Srivastav, Kenza Bouzid, Shruthi Bannur, Daniel Coelho de Castro, Maximilian Ilse, Sam Bond-Taylor, Mercy Ranjit, Fabian Falck, Fernando Pérez-García, Anton Schwaighofer, Hannah Richardson (nee Murfet), Maria Teodora Wetscherek, Stephanie Hyland, Javier Alvarez-Valle Machine Learning for Health Symposium 2024 | December 2024 Project
Publication Deeper evaluation of a single-cell foundation model Rebecca Boiarsky, Nalini M. Singh, Alejandro Buendia, Ava P. Amini, Gad Getz, David Sontag Nature Machine Intelligence | December 2024
Publication The USC Annenberg Relevance Report 2025 Richard Banks, Advait Sarkar, Gonzalo Ramos, Leon Reicherts, Pratik Ghosh December 2024 Project
Publication From Medprompt to o1: Exploration of Run-Time Strategies for Medical Challenge Problems and Beyond Harsha Nori, Naoto Usuyama, Nicholas King, S. McKinney, Xavier Fernandes, Sheng Zhang, Eric Horvitz November 2024
Publication A Study on Context Length and Efficient Transformers for Biomedical Image Analysis Sarah Hooper, Hui Xue Machine Learning for Health (ML4H) 2024 | November 2024
