7 papers
Large Language Models Meet Biomedical Knowledge Graphs for Mechanistically Grounded Therapeutic Prioritization
Chih-Hsuan Wei, Chi-Ping Day, Zhizheng Wang +8
Drug repurposing is often framed as a candidate identification task, but existing approaches provide limited guidance for distinguishing biologically plausible candidates from hist…
DeepER-Med: Advancing Deep Evidence-Based Research in Medicine Through Agentic AI
Zhizheng Wang, Chih-Hsuan Wei, Joey Chan +19
Trustworthiness and transparency are essential for the clinical adoption of artificial intelligence (AI) in healthcare and biomedical research. Recent deep research systems aim to…
CT-Bench: A Benchmark for Multimodal Lesion Understanding in Computed Tomography
Qingqing Zhu, Qiao Jin, Tejas S. Mathai +10
Artificial intelligence (AI) can automatically delineate lesions on computed tomography (CT) and generate radiology report content, yet progress is limited by the scarcity of publi…
Gene-R1: Reasoning with Data-Augmented Lightweight LLMs for Gene Set Analysis
Zhizheng Wang, Yifan Yang, Qiao Jin +1
The gene set analysis (GSA) is a foundational approach for uncovering the molecular functions associated with a group of genes. Recently, LLM-powered methods have emerged to annota…
Rethinking Contrastive Learning in Session-based Recommendation
Xiaokun Zhang, Bo Xu, Fenglong Ma +3
Session-based recommendation aims to predict intents of anonymous users based on limited behaviors. With the ability in alleviating data sparsity, contrastive learning is prevailin…
Knowledge-guided Contextual Gene Set Analysis Using Large Language Models
Zhizheng Wang, Chi-Ping Day, Chih-Hsuan Wei +9
Gene set analysis (GSA) is a foundational approach for interpreting genomic data of diseases by linking genes to biological processes. However, conventional GSA methods overlook cl…