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Joey Chan

Joey Chan contributes to research discovery and scholarly infrastructure.

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Computation and Language Artificial Intelligence Information Retrieval Machine Learning

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preprint2026arXiv

MedHopQA: A Disease-Centered Multi-Hop Reasoning Benchmark and Evaluation Framework for LLM-Based Biomedical Question Answering

Evaluating large language models (LLMs) in the biomedical domain requires benchmarks that can distinguish reasoning from pattern matching and remain discriminative as model capabilities improve. Existing biomedical question answering (QA) benchmarks are limited in this respect. Multiple-choice formats can allow models to succeed through answer elimination rather than inference, while widely circulated exam-style datasets are increasingly vulnerable to performance saturation and training data contamination. Multi-hop reasoning, defined as the ability to integrate information across multiple sources to derive an answer, is central to clinically meaningful tasks such as diagnostic support, literature-based discovery, and hypothesis generation, yet remains underrepresented in current biomedical QA benchmarks. MedHopQA is a disease-centered multi-hop reasoning benchmark consisting of 1,000 expert-curated question-answer pairs introduced as a shared task at BioCreative IX. Each question requires synthesis of information across two distinct Wikipedia articles, and answers are provided in an open-ended free-text format. Gold annotations are augmented with ontology-grounded synonym sets from MONDO, NCBI Gene, and NCBI Taxonomy to support both lexical and concept-level evaluation. MedHopQA was constructed through a structured process combining human annotation, triage, iterative verification, and LLM-as-a-judge validation. To reduce leaderboard gaming and contamination risk, the 1,000 scored questions are embedded within a publicly downloadable set of 10,000 questions, with answers withheld, on a CodaBench leaderboard. MedHopQA provides both a benchmark and a reusable framework for constructing future biomedical QA datasets that prioritize compositional reasoning, saturation resistance, and contamination resistance as core design constraints.

preprint2026arXiv

Overview of the MedHopQA track at BioCreative IX: track description, participation and evaluation of systems for multi-hop medical question answering

Multi-hop question answering (QA) remains a significant challenge in the biomedical domain, requiring systems to integrate information across multiple sources to answer complex questions. To address this problem, the BioCreative IX MedHopQA shared task was designed to benchmark in multi-hop reasoning for large language models (LLMs). We developed a novel dataset of 1,000 challenging QA pairs spanning diseases, genes, and chemicals, with particular emphasis on rare diseases. Each question was constructed to require two-hop reasoning through the integration of information from two distinct Wikipedia pages. The challenge attracted 48 submissions from 13 teams. Systems were evaluated using both surface string comparison and conceptual accuracy (MedCPT score). The results showed a substantial performance gap between baseline LLMs and enhanced systems. The top-ranked submission achieved an 89.30% F1 score on the MedCPT metric and an 87.30% exact match (EM) score, compared with 67.40% and 60.20%, respectively, for the zero-shot baseline. A central finding of the challenge was that retrieval-augmented generation (RAG) and related retrieval-based strategies were critical for strong performance. In addition, concept-level evaluation improved answer assessment when correct responses differed in surface form. The MedHopQA dataset is publicly available to support continued progress in this important area. Challenge materials: https://www.ncbi.nlm.nih.gov/research/bionlp/medhopqa and benchmark https://www.codabench.org/competitions/7609/

preprint2026arXiv

ReLay: Personalized LLM-Generated Plain-Language Summaries for Better Understanding, but at What Cost?

Plain Language Summaries (PLS) aim to make research accessible to lay readers, but they are typically written in a one-size-fits-all style that ignores differences in readers' information needs and comprehension. In health contexts, this limitation is particularly important because misunderstanding scientific information can affect real-world decisions. Large language models (LLMs) offer new opportunities for personalizing PLS, but it remains unclear whether personalization helps, which strategies are most effective, and how to balance personalization with safety. We introduce ReLay, a dataset of 300 participant--PLS pairs from 50 lay participants in both static (expert-written) and interactive (LLM-personalized) settings. ReLay includes user characteristics, health information needs, information-seeking behavior, comprehension outcomes, interaction logs, and quality ratings. We use ReLay to evaluate five LLMs across two personalization methods. Personalization improves comprehension and perceived quality, but it also raises the risk of reinforcing user biases and introducing hallucinations, revealing a trade-off between personalization and safety. These findings highlight the need for personalization methods that are both effective and trustworthy for diverse lay audiences.

preprint2025arXiv

Foundation Models Knowledge Distillation For Battery Capacity Degradation Forecast

Accurate forecasting of lithium-ion battery capacity degradation is critical for reliable and safe operation, yet remains challenging under distribution shifts across scales and operating regimes. Here we investigate a time-series foundation model, that is, a large pre-trained time-series model for capacity degradation forecasting, and propose a degradation-aware fine-tuning strategy that aligns the model to capacity trajectories while retaining broadly transferable temporal structure. We instantiate this approach by fine-tuning the Timer model on 220,153 cycles of open-source charge-discharge records to obtain Battery-Timer. Using our released CycleLife-SJTUIE dataset, a real-world industrial collection from an energy-storage station with long-horizon cycling, we evaluate capacity generalization from small cells to large-scale storage systems and across varying operating conditions. Battery-Timer consistently outperforms specialized expert models. To address deployment cost, we further introduce knowledge distillation, a teacher-student transfer that compresses the foundation model's behavior into compact expert models. Distillation across several state-of-the-art time-series experts improves multi-condition capacity generalization while substantially reducing computational overhead, indicating a practical path to deployable cross-scale degradation forecasting by combining a foundation model with targeted distillation.

preprint2025arXiv

Universal Battery Degradation Forecasting Driven by Foundation Model Across Diverse Chemistries and Conditions

Accurate forecasting of battery capacity fade is essential for the safety, reliability, and long-term efficiency of energy storage systems. However, the strong heterogeneity across cell chemistries, form factors, and operating conditions makes it difficult to build a single model that generalizes beyond its training domain. This work proposes a unified capacity forecasting framework that maintains robust performance across diverse chemistries and usage scenarios. We curate 20 public aging datasets into a large-scale corpus covering 1,704 cells and 3,961,195 charge-discharge cycle segments, spanning temperatures from $-5\,^{\circ}\mathrm{C}$ to $45\,^{\circ}\mathrm{C}$, multiple C-rates, and application-oriented profiles such as fast charging and partial cycling. On this corpus, we adopt a Time-Series Foundation Model (TSFM) backbone and apply parameter-efficient Low-Rank Adaptation (LoRA) together with physics-guided contrastive representation learning to capture shared degradation patterns. Experiments on both seen and deliberately held-out unseen datasets show that a single unified model achieves competitive or superior accuracy compared with strong per-dataset baselines, while retaining stable performance on chemistries, capacity scales, and operating conditions excluded from training. These results demonstrate the potential of TSFM-based architectures as a scalable and transferable solution for capacity degradation forecasting in real battery management systems.

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