23 papers
BioMedJImpact: A Comprehensive Dataset and LLM Pipeline for AI Engagement and Scientific Impact Analysis of Biomedical Journals
Ruiyu Wang, Yuzhang Xie, Xiao Hu +2
Assessing journal impact is central to scholarly communication, yet existing resources rarely capture how collaboration and artificial intelligence (AI) research jointly shape venu…
LLMBDC: Language Model for Biological Domains Oriented Clustering of Gene Ontology
Ximing Ran, Jie Xu, Peng Jin +3
Gene Ontology (GO) enrichment analysis is a foundational tool for translating large-scale genomic data into biological insights, but typically yields hundreds of redundant terms th…
TCellAlign: Cross-study T-cell Populations Alignment with Nomenclature-Guided Multi-Agent Workflow
Pengyu Xie, Rongjia Zhou, Zhilin Ou +5
Cell type standardization plays a central role in integrating biological knowledge across single-cell studies. While standardized resources (e.g., Cell Ontology, Nomenclature Frame…
LLM-MINE: Large Language Model based Alzheimer's Disease and Related Dementias Phenotypes Mining from Clinical Notes
Mingchen Shao, Yuzhang Xie, Carl Yang +1
Accurate extraction of Alzheimer's Disease and Related Dementias (ADRD) phenotypes from electronic health records (EHR) is critical for early-stage detection and disease staging. H…
NutriMLLM: Multimodal Large Language Models for Dietary Micronutrient Analysis
Runze Yan, Minxiao Wang, Jiaying Lu +3
Comprehensive estimation of dietary micronutrients from food images could improve clinical nutrition care, but training such models requires large multimodal datasets linking diver…
EHRBench: An Automated and Reliable EHR-based Benchmark for Clinical Decision Making with LLMs
Yuzhang Xie, Keqi Han, Yunpeng Xiao +7
Clinical decision-making (CDM) is central to real-world clinical workflows, where clinicians infer diagnoses, select treatments, or anticipate future health outcomes under incomple…