Deep Learning-Based Open Source Toolkit for Eosinophil Detection in Pediatric Eosinophilic Esophagitis. - Juming Xiong; Yilin Liu; Ruining Deng; Regina N. Tyree; Hernán Correa; Girish Hiremath; Yaohong Wang; Yuankai Huo (CoRR, 2023)

Eosinophils Instance Object Segmentation on Whole Slide Imaging Using Multi-label Circle Representation. - Yilin Liu; Ruining Deng; Juming Xiong; Regina N. Tyree; Hernán Correa; Girish Hiremath; Yaohong Wang; Yuankai Huo (CoRR, 2023)

PrPSeg: Universal Proposition Learning for Panoramic Renal Pathology Segmentation. - Ruining Deng; Quan Liu 002; Can Cui 006; Tianyuan Yao; Jialin Yue; Juming Xiong; Lining Yu; Yifei Wu; Mengmeng Yin; Yu Wang; Shilin Zhao; Yucheng Tang; et al. (CVPR, 2024)

HATs: Hierarchical Adaptive Taxonomy Segmentation for Panoramic Pathology Image Analysis. - Ruining Deng; Quan Liu 002; Can Cui 006; Tianyuan Yao; Juming Xiong; Shunxing Bao; Hao Li; Mengmeng Yin; Yu Wang; Shilin Zhao; Yucheng Tang; Haichun Yang; et al. (MICCAI (4), 2024)

Circle Representation for Medical Instance Object Segmentation. - Juming Xiong; Ethan H. Nguyen; Yilin Liu; Ruining Deng; Regina N. Tyree; Hernán Correa; Girish Hiremath; Yaohong Wang; Haichun Yang; Agnes B. Fogo; Yuankai Huo (CoRR, 2024)

Weighted Circle Fusion: Ensembling Circle Representation from Different Object Detection Results. - Jialin Yue; Tianyuan Yao; Ruining Deng; Quan Liu 002; Juming Xiong; Haichun Yang; Yuankai Huo (CoRR, 2024)

Assessment of Cell Nuclei AI Foundation Models in Kidney Pathology. - Junlin Guo; Siqi Lu; Can Cui 006; Ruining Deng; Tianyuan Yao; Zhewen Tao; Yizhe Lin; Marilyn Lionts; Quan Liu 002; Juming Xiong; Catie Chang; Mitchell Wilkes; et al. (CoRR, 2024)

Automatic Image Unfolding and Stitching Framework for Esophageal Lining Video Based on Density-Weighted Feature Matching. - Muyang Li; Juming Xiong; Ruining Deng; Tianyuan Yao; Regina N. Tyree; Girish Hiremath; Yuankai Huo (CoRR, 2024)

How Good Are We? Evaluating Cell AI Foundation Models in Kidney Pathology with Human-in-the-Loop Enrichment. - Junlin Guo; Siqi Lu; Can Cui 006; Ruining Deng; Tianyuan Yao; Zhewen Tao; Yizhe Lin; Marilyn Lionts; Quan Liu 002; Juming Xiong; Yu Wang; Shilin Zhao; et al. (CoRR, 2024)

Cross-organ Deployment of EOS Detection AI without Retraining: Feasibility and Limitation. - Yifei Wu; Juming Xiong; Tianyuan Yao; Ruining Deng; Junlin Guo; Jialin Yue; Naweed Chowdhury; Yuankai Huo (CoRR, 2024)

GloFinder: AI-empowered QuPath Plugin for WSI-level Glomerular Detection, Visualization, and Curation. - Jialin Yue; Tianyuan Yao; Ruining Deng; Siqi Lu; Junlin Guo; Quan Liu 002; Mengmeng Yin; Juming Xiong; Haichun Yang; Yuankai Huo (CoRR, 2024)

ASIGN: An Anatomy-aware Spatial Imputation Graphic Network for 3D Spatial Transcriptomics. - Junchao Zhu; Ruining Deng; Tianyuan Yao; Juming Xiong; Chongyu Qu; Junlin Guo; Siqi Lu; Mengmeng Yin; Yu Wang; Shilin Zhao; Haichun Yang; Yuankai Huo (CVPR, 2025)

Expanding Training Data for Endoscopic Phenotyping of Eosinophilic Esophagitis. - Juming Xiong; Hou Xiong; Quan Liu 002; Ruining Deng; Regina N. Tyree; Girish Hiremath; Yuankai Huo (CoRR, 2025)

Enhanced Feature-based Image Stitching for Endoscopic Videos in Pediatric Eosinophilic Esophagitis. - Juming Xiong; Muyang Li; Ruining Deng; Tianyuan Yao; Shunxing Bao; Regina N. Tyree; Girish Hiremath; Yuankai Huo (CoRR, 2025)

KPIs 2024 Challenge: Advancing Glomerular Segmentation from Patch- to Slide-Level. - Ruining Deng; Tianyuan Yao; Yucheng Tang; Junlin Guo; Siqi Lu; Juming Xiong; Lining Yu; Quan Huu Cap; Pengzhou Cai; Libin Lan; Ze Zhao; Adrian Galdran; et al. (CoRR, 2025)

CASC-AI: Consensus-aware Self-corrective AI Agents for Noise Cell Segmentation. - Ruining Deng; Yihe Yang; David J. Pisapia; Benjamin Liechty; Junchao Zhu; Juming Xiong; Junlin Guo; Zhengyi Lu; Jiacheng Wang; Xing Yao; Runxuan Yu; Rendong Zhang; et al. (CoRR, 2025)

MagNet: Multi-Level Attention Graph Network for Predicting High-Resolution Spatial Transcriptomics. - Junchao Zhu; Ruining Deng; Tianyuan Yao; Juming Xiong; Chongyu Qu; Junlin Guo; Siqi Lu; Yucheng Tang; Daguang Xu; Mengmeng Yin; Yu Wang; Shilin Zhao; et al. (CoRR, 2025)

DeepAndes: A Self-Supervised Vision Foundation Model for Multi-Spectral Remote Sensing Imagery of the Andes. - Junlin Guo; James Zimmer-Dauphinee; Jordan M. Nieusma; Siqi Lu; Quan Liu 002; Ruining Deng; Can Cui 006; Jialin Yue; Yizhe Lin; Tianyuan Yao; Juming Xiong; Junchao Zhu; et al. (CoRR, 2025)

IRS: Incremental Relationship-guided Segmentation for Digital Pathology. - Ruining Deng; Junchao Zhu; Juming Xiong; Can Cui 006; Tianyuan Yao; Junlin Guo; Siqi Lu; Marilyn Lionts; Mengmeng Yin; Yu Wang; Shilin Zhao; Yucheng Tang; et al. (CoRR, 2025)

ZeroReg3D: A Zero-shot Registration Pipeline for 3D Consecutive Histopathology Image Reconstruction. - Juming Xiong; Ruining Deng; Jialin Yue; Siqi Lu; Junlin Guo; Marilyn Lionts; Tianyuan Yao; Can Cui 006; Junchao Zhu; Chongyu Qu; Mengmeng Yin; Haichun Yang; et al. (CoRR, 2025)

Img2ST-Net: Efficient High-Resolution Spatial Omics Prediction from Whole Slide Histology Images via Fully Convolutional Image-to-Image Learning. - Junchao Zhu; Ruining Deng; Junlin Guo; Tianyuan Yao; Juming Xiong; Chongyu Qu; Mengmeng Yin; Yu Wang; Shilin Zhao; Haichun Yang; Daguang Xu; Yucheng Tang; et al. (CoRR, 2025)

Cohort-Aware Agents for Individualized Lung Cancer Risk Prediction Using a Retrieval-Augmented Model Selection Framework. - Chongyu Qu; Allen J. Luna; Thomas Z. Li; Junchao Zhu; Junlin Guo; Juming Xiong; Kim L. Sandler; Bennett A. Landman; Yuankai Huo (CoRR, 2025)