Publications

Wu P, Lin M, Chen Q, Chew EY, Lu Z, Peng Y, Dong H.  2026.  AMD-Mamba: A Phenotype-Aware Multi-modal Framework for Robust AMD Prognosis.. Mach Learn Med Imaging. 16241:150-160.

Bian J, Peng Y, Mendonca E, Banerjee I, Xu H.  2026.  Biomedical multimodal large language models: From model-centric development to clinically grounded evaluation and integration.. J Biomed Inform. :105023.

Song Y, Zhan Z, Xie F, Wang N, Peng Y, Zhang R, Lin M.  2026.  A cancer-type-aware framework for robust multimodal survival prediction under missing modalities.. Brief Bioinform. 27(2)

Deng R, Martin G, Wang T, Zhang G, Liu Y, Weng C, Wang Y, Rousseau JF, Peng Y.  2026.  CPGPrompt: translating clinical guidelines into large language model-executable decision support.. J Am Med Inform Assoc.

Fang Y, Zhang G, Chen F, Peng Y, Weng C.  2026.  A critical evaluation of generative query expansion on biomedical literature retrieval.. J Am Med Inform Assoc. 33(6):1121-1133.

Zhou Z, Deng Y, Liu L, Jiang H, Peng Y, Yang X, Zhao Y, Ning H, Allen NB, Wilkins JT et al..  2026.  Deep Neural Network With a Smooth Monotonic Output Layer for Dynamic Risk Prediction.. Stat Med. 45(3-5):e70401.

Wu P, Dong H, Lin Y, Ding Y, Peng Y.  2026.  A Disease-Aware Dual-Stage Framework for Chest X-ray Report Generation.. Proc AAAI Conf Artif Intell. 40(40):33953-33961.

Xu Z, Lin M, Zhou Y, Xu Z, Orlow SJ, Meehan SA, Flamm A, Moshiri AS, Peng Y.  2026.  Establishing dermatopathology encyclopedia DermpathNet with Artificial Intelligence-Based Workflow.. Sci Data. 13(1)

Yang R, Li H, Wong MYu Heng, Ke Y, Li X, Yu K, Liao J, Liew JChong Kai, Nair SVinod, Ong JChiat Ling et al..  2026.  The evolving landscape of large language models and non-large language models in health care.. Npj Health Syst. 3

Flanders AE, Peng Y, Prevedello L, Ball R, Colak E, Menon P, Shih G, Lin H-M, Lakhani P.  2026.  A multi-agent large language model framework to automatically assess performance of a clinical AI Triage tool.. Npj Health Syst. 3

Zhang G, Fang Y, Chen F, Ta C, Hripcsak G, Ryan P, Peng Y, Weng C.  2026.  A neural-symbolic AI agent system for biomedical concept mapping.. NPJ Digit Med. 9(1)

Dong H, Lin Y, Zhou P, Feng XZhong, Legasto AClint, Lin M, Chen H, Yang Y, Shih G, Peng Y.  2026.  OVERVIEW OF THE CXR-LT 2026 CHALLENGE: MULTI-CENTER LONG-TAILED AND ZERO SHOT CHEST X-RAY CLASSIFICATION.. Proc IEEE Int Symp Biomed Imaging. 2026

Wei Y, Lin Y, Flanders A, Shih G, Peng Y.  2026.  Reinforcement learning improves LLM accuracy and reasoning in disease classification from radiology reports.. NPJ Digit Med.

Lin Y, Yang Y, Shih G, Peng Y.  2026.  Rethinking radiology AI benchmarks.. Radiol Adv. 3(3):umag022.

He S, Nie Y, Wang H, Yang S, Wang Y, Cai Z, Chen Z, Xu Y, Wu L, Cheng NShing et al..  2026.  Towards generalizable AI in medicine via Generalist-Specialist Collaboration.. Nat Biomed Eng.

Song Y, Zhang Y, Orengo-Nania S, Wang N, Ma F, Zhang R, Peng Y, Lin M.  2026.  Two-Stage Decoupling Framework for Variable-Length Glaucoma Prognosis.. Learn Longitud Med Images Data (2025). 16184:91-101.

Yu K, Yang R, Liao J, Li S, Li H, Li I, Peng Y, Kamaleswaran R, Liu N.  2025.  Benchmarking Foundation Models with Multimodal Public Electronic Health Records.. IEEE J Biomed Health Inform. PP

Fang Y, Zhang G, Chen F, Hripcsak G, Peng Y, Ryan P, Weng C.  2025.  CLEAR: A vision to support clinical evidence lifecycle with continuous learning.. J Biomed Inform. 169:104884.

Lin M, Holste G, Wang S, Zhou Y, Wei Y, Banerjee I, Chen P, Dai T, Du Y, Dvornek NC et al..  2025.  CXR-LT 2024: A MICCAI challenge on long-tailed, multi-label, and zero-shot disease classification from chest X-ray.. Med Image Anal. 106:103739.

Cheng S, Wei Y, Zhou Y, Xu Z, Wright DN, Liu J, Peng Y.  2025.  Deciphering genomic codes using advanced natural language processing techniques: a scoping review.. J Am Med Inform Assoc.

Teran F, Owyang CG, Wray TC, Hipskind JE, Lessard J, Michel WBédard, Lanthier C, Nazerian P, de Villa E, Nogueira J et al..  2025.  Development and Implementation of a Multicenter Registry for Resuscitation-Focused Transesophageal Echocardiography.. Ann Emerg Med. 85(2):147-162.

Wang Y, Hilsman J, Li C, Morris M, Heider PM, Fu S, Kwak MJi, Wen A, Applegate JR, Wang L et al..  2025.  Development and Validation of Natural Language Processing Algorithms in the ENACT National Electronic Health Record Research Network.. medRxiv.

Morris JX, Campion TR, Nutheti SLaasya, Peng Y, Raj A, Zabih R, Cole CL.  2025.  DIRI: Adversarial Patient Reidentification with Large Language Models for Evaluating Clinical Text Anonymization.. AMIA Jt Summits Transl Sci Proc. 2025:355-364.

Lin M, Wang S, Ding Y, Zhao L, Wang F, Peng Y.  2025.  An empirical study of using radiology reports and images to improve intensive care unit mortality prediction.. JAMIA Open. 8(1):ooae137.

Wei Y, Wang X, Ong H, Zhou Y, Flanders A, Shih G, Peng Y.  2025.  Enhancing Disease Detection in Radiology Reports Through Fine-tuning Lightweight LLM on Weak Labels.. AMIA Jt Summits Transl Sci Proc. 2025:614-623.