arXiv subjects

Jiarui Ouyang

Publications and source records attributed to Jiarui Ouyang.

4 recordsLinked to original sources

arXiv2026

Democratizing and accelerating AI-driven pathology research through agentic intelligence

Computational pathology has advanced rapidly with the emergence of foundation models, yet widespread adoption remains limited by substantial technical complexity and programming requirements. Here we present PathLab, an autonomous agentic framework that translates natural-language research objectives into executable and validated computational pathology workflows through the structured composition of domain-specific skills and tools. By organizing workflow generation around reusable methodological modules, including data preprocessing, model development, evaluation and interpretation, PathLab enables studies to be specified at the level of scientific intent rather than implementation details. We evaluated PathLab across 12 public datasets spanning four representative task families: region-of-interest classification, whole-slide image classification, segmentation and survival prediction. Across all task categories, PathLab achieved non-inferior performance relative to expert implementations, while consistently enforcing semantic validity of user prompts and proactively rejecting incompatible workflow specifications prior to execution. In controlled user studies, PathLab substantially reduced the time required to generate executable analytical pipelines and enabled domain experts without programming experience to independently design, execute and evaluate computational pathology studies. Together, these results establish PathLab as a reliable interface between biomedical intent and computational execution, enabling computational pathology studies to be designed at the level of scientific questions rather than programming expertise. By lowering technical barriers to advanced AI methodologies, PathLab provides a foundation for the broader democratization of computational pathology.

cs.AI↗

arXiv2025

GenAR: Next-Scale Autoregressive Generation for Spatial Gene Expression Prediction

Spatial Transcriptomics (ST) offers spatially resolved gene expression but remains costly. Predicting expression directly from widely available Hematoxylin and Eosin (H&E) stained images presents a cost-effective alternative. However, most computational approaches (i) predict each gene independently, overlooking co-expression structure, and (ii) cast the task as continuous regression despite expression being discrete counts. This mismatch can yield biologically implausible outputs and complicate downstream analyses. We introduce GenAR, a multi-scale autoregressive framework that refines predictions from coarse to fine. GenAR clusters genes into hierarchical groups to expose cross-gene dependencies, models expression as codebook-free discrete token generation to directly predict raw counts, and conditions decoding on fused histological and spatial embeddings. From an information-theoretic perspective, the discrete formulation avoids log-induced biases and the coarse-to-fine factorization aligns with a principled conditional decomposition. Extensive experimental results on four Spatial Transcriptomics datasets across different tissue types demonstrate that GenAR achieves state-of-the-art performance, offering potential implications for precision medicine and cost-effective molecular profiling. Code is publicly available at https://github.com/oyjr/genar.

cs.CV↗

arXiv2025

A Survey on Recent Advances in LLM-Based Multi-turn Dialogue Systems

This survey provides a comprehensive review of research on multi-turn dialogue systems, with a particular focus on multi-turn dialogue systems based on large language models (LLMs). This paper aims to (a) give a summary of existing LLMs and approaches for adapting LLMs to downstream tasks; (b) elaborate recent advances in multi-turn dialogue systems, covering both LLM-based open-domain dialogue (ODD) and task-oriented dialogue (TOD) systems, along with datasets and evaluation metrics; (c) discuss some future emphasis and recent research problems arising from the development of LLMs and the increasing demands on multi-turn dialogue systems.

cs.CL↗

arXiv2024

FLEX-CLIP: Feature-Level GEneration Network Enhanced CLIP for X-shot Cross-modal Retrieval

Given a query from one modality, few-shot cross-modal retrieval (CMR) retrieves semantically similar instances in another modality with the target domain including classes that are disjoint from the source domain. Compared with classical few-shot CMR methods, vision-language pretraining methods like CLIP have shown great few-shot or zero-shot learning performance. However, they still suffer challenges due to (1) the feature degradation encountered in the target domain and (2) the extreme data imbalance. To tackle these issues, we propose FLEX-CLIP, a novel Feature-level Generation Network Enhanced CLIP. FLEX-CLIP includes two training stages. In multimodal feature generation, we propose a composite multimodal VAE-GAN network to capture real feature distribution patterns and generate pseudo samples based on CLIP features, addressing data imbalance. For common space projection, we develop a gate residual network to fuse CLIP features with projected features, reducing feature degradation in X-shot scenarios. Experimental results on four benchmark datasets show a 7%-15% improvement over state-of-the-art methods, with ablation studies demonstrating enhancement of CLIP features.

cs.CV↗