publications

2025

  1. Ophthalmology science
    Benchmarking LLMs for Ophthalmology (BELO): An Expert-Curated Dataset and Evaluation Framework for Knowledge and Reasoning
    Sahana Srinivasan, Xuguang Ai, Thaddaeus Wai Soon Lo, and 8 more authors
    Ophthalmology Science, 2025
  2. Nature Comms
    Agentmd: Empowering language agents for risk prediction with large-scale clinical tool learning
    Qiao Jin, Zhizheng Wang, Yifan Yang, and 8 more authors
    Nature Communications, 2025
  3. MEDINFO
    Clinical Trial Eligibility Criteria Decomposition and Parsing with Large Language Models
    Hongyu Chen, Lingfei Qian, Xing He, and 8 more authors
    Studies in health technology and informatics, 2025
  4. JAMA Ophthalmology
    Ophthalmological question answering and reasoning using OpenAI o1 vs other large language models
    Sahana Srinivasan, Xuguang Ai, Minjie Zou, and 8 more authors
    JAMA ophthalmology, 2025
  5. NLDB
    Comparison of pipelines, seq2seq models, and LLMs for rare disease information extraction
    Shashank Gupta, Xuguang Ai, Yuhang Jiang, and 1 more author
    In International Conference on Applications of Natural Language to Information Systems, 2025
  6. Nature Comms
    Benchmarking large language models for biomedical natural language processing applications and recommendations
    Qingyu Chen, Yan Hu, Xueqing Peng, and 8 more authors
    Nature communications, 2025

2024

  1. BioNLP@ACL
    Yale at "discharge me!": Evaluating constrained generation of discharge summaries with unstructured and structured information
    Vimig Socrates, Thomas Huang, Xuguang Ai, and 4 more authors
    In Proceedings of the 23rd Workshop on Biomedical Natural Language Processing, 2024

2023

  1. JMIR MI
    Acquisition of a Lexicon for Family History Information: Bidirectional Encoder Representations From Transformers–Assisted Sublanguage Analysis
    Liwei Wang, Huan He, Andrew Wen, and 7 more authors
    JMIR Medical Informatics, 2023
  2. ICHI
    End-to-End models for chemical–protein interaction extraction: better tokenization and span-based pipeline strategies
    Xuguang Ai and Ramakanth Kavuluru
    In 2023 IEEE 11th International Conference on Healthcare Informatics (ICHI), 2023