Sylvey Lin

Sylvey Lin, Joe Menke, Shufan Ming et al.

Biomedical abstracts play a critical role in downstream NLP applications, such as information retrieval, biocuration, and biomedical knowledge discovery. However, a non-trivial number of biomedical articles do not have abstracts, diminishing the utility of these articles for downstream tasks. We propose DPR-BAG (Divide, Prompt, and Refine for Biomedical Abstract Generation), a training-free, zero-shot framework that generates coherent and factually grounded abstracts for biomedical articles with full text but no abstract. DPR-BAG decomposes full-text documents into structured rhetorical facets following the Background-Objective-Methods-Results-Conclusions (BOMRC) schema, performs parallel LLM-based summarization for each facet, and applies a final refinement stage to restore global discourse coherence. On PMC-MAD, a distribution-aligned dataset of 46,309 biomedical articles, DPR-BAG improves abstractive novelty over strong extractive and fine-tuned baselines, while maintaining factual consistency. Our ablation study reveals a counterintuitive finding: increasing prompt complexity or explicitly injecting entity-level guidance can degrade factual alignment, highlighting the importance of controlled prompting strategies. These findings underscore the potential of training-free, structure-aware frameworks for scalable biomedical abstract generation in low-resource settings. Our data and code are available at https://huggingface.co/datasets/pmc-mad/PMC-MAD and https://github.com/ScienceNLP-Lab/MultiTagger-v2/tree/main/DPR-BAG.

Sylvey Lin, Zhi-Yi Cao

We investigate whether synthetic images generated by diffusion models can enhance multi-label classification of protein subcellular localization. Specifically, we implement a simplified class-conditional denoising diffusion probabilistic model (DDPM) to produce label-consistent samples and explore their integration with real data via two hybrid training strategies: Mix Loss and Mix Representation. While these approaches yield promising validation performance, our proposed MixModel exhibits poor generalization to unseen test data, underscoring the challenges of leveraging synthetic data effectively. In contrast, baseline classifiers built on ResNet backbones with conventional loss functions demonstrate greater stability and test-time performance. Our findings highlight the importance of realistic data generation and robust supervision when incorporating generative augmentation into biomedical image classification.

Sylvey Lin, Eranki Vasistha

Denoising Diffusion Probabilistic Models (DDPMs) have achieved remarkable success in high-fidelity image generation. However, evaluating their semantic controllability-specifically for fine-grained, single-domain tasks-remains challenging. Standard metrics like FID and Inception Score (IS) often fail to detect identity misalignment in such specialized contexts. In this work, we investigate Class-Conditional DDPMs for K-pop idol face generation (32x32), a domain characterized by high inter-class similarity. We propose a calibrated metric, Relative Classification Accuracy (RCA), which normalizes generative performance against an oracle classifier's baseline. Our evaluation reveals a critical trade-off: while the model achieves high visual quality (FID 8.93), it suffers from severe semantic mode collapse (RCA 0.27), particularly for visually ambiguous identities. We analyze these failure modes through confusion matrices and attribute them to resolution constraints and intra-gender ambiguity. Our framework provides a rigorous standard for verifying identity consistency in conditional generative models.