Ruining Deng

According to our database, Ruining Deng authored at least 54 papers between 2020 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

Circle Representation for Medical Instance Object Segmentation.

Juming Xiong, Ethan H. Nguyen, Yilin Liu, Ruining Deng, Regina N. Tyree, Hernan Correa, Girish Hiremath, Yaohong Wang, Haichun Yang, Agnes B. Fogo, Yuankai Huo

CoRR, 2024

PrPSeg: Universal Proposition Learning for Panoramic Renal Pathology Segmentation.

Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Jialin Yue, Juming Xiong, Lining Yu, Yifei Wu, Mengmeng Yin, Yu Wang, Shilin Zhao, Yucheng Tang, Haichun Yang, Yuankai Huo

CoRR, 2024

Nucleus subtype classification using inter-modality learning.

Lucas W. Remedios, Shunxing Bao, Samuel W. Remedios, Ho Hin Lee, Leon Y. Cai, Thomas Z. Li, Ruining Deng, Can Cui, Jia Li, Qi Liu, Ken S. Lau, Joseph T. Roland, Mary K. Washington, Lori A. Coburn, Keith T. Wilson, Yuankai Huo, Bennett A. Landman

CoRR, 2024

2023

Omni-Seg: A Scale-Aware Dynamic Network for Renal Pathological Image Segmentation.

Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Jun Long, Zuhayr Asad, R. Michael Womick, Zheyu Zhu, Agnes B. Fogo, Shilin Zhao, Haichun Yang, Yuankai Huo

IEEE Trans. Biomed. Eng., September, 2023

Evaluation Kidney Layer Segmentation on Whole Slide Imaging using Convolutional Neural Networks and Transformers.

Muhao Liu, Chenyang Qi, Shunxing Bao, Quan Liu, Ruining Deng, Yu Wang, Shilin Zhao, Haichun Yang, Yuankai Huo

CoRR, 2023

False Negative/Positive Control for SAM on Noisy Medical Images.

Xing Yao, Han Liu, Dewei Hu, Daiwei Lu, Ange Lou, Hao Li, Ruining Deng, Gabriel Arenas, Baris U. Oguz, Nadav Schwartz, Brett C. Byram, Ipek Oguz

CoRR, 2023

Cell Spatial Analysis in Crohn's Disease: Unveiling Local Cell Arrangement Pattern with Graph-based Signatures.

Shunxing Bao, Sichen Zhu, Vasantha L. Kolachala, Lucas W. Remedios, Yeonjoo Hwang, Yutong Sun, Ruining Deng, Can Cui, Yike Li, Jia Li, Joseph T. Roland, Qi Liu, Ken S. Lau, Subra Kugathasan, Peng Qiu, Keith T. Wilson, Lori A. Coburn, Bennett A. Landman, Yuankai Huo

CoRR, 2023

Cross-modality Attention-based Multimodal Fusion for Non-small Cell Lung Cancer (NSCLC) Patient Survival Prediction.

Ruining Deng, Nazim N. Shaikh, Gareth Shannon, Yao Nie

CoRR, 2023

Eosinophils Instance Object Segmentation on Whole Slide Imaging Using Multi-label Circle Representation.

Yilin Liu, Ruining Deng, Juming Xiong, Regina N. Tyree, Hernan Correa, Girish Hiremath, Yaohong Wang, Yuankai Huo

CoRR, 2023

Deep Learning-Based Open Source Toolkit for Eosinophil Detection in Pediatric Eosinophilic Esophagitis.

Juming Xiong, Yilin Liu, Ruining Deng, Regina N. Tyree, Hernan Correa, Girish Hiremath, Yaohong Wang, Yuankai Huo

CoRR, 2023

Spatial Pathomics Toolkit for Quantitative Analysis of Podocyte Nuclei with Histology and Spatial Transcriptomics Data in Renal Pathology.

Jiayuan Chen, Yu Wang, Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Yilin Liu, Jianyong Zhong, Agnes B. Fogo, Haichun Yang, Shilin Zhao, Yuankai Huo

CoRR, 2023

Leverage Weakly Annotation to Pixel-wise Annotation via Zero-shot Segment Anything Model for Molecular-empowered Learning.

Xueyuan Li, Ruining Deng, Yucheng Tang, Shunxing Bao, Haichun Yang, Yuankai Huo

CoRR, 2023

High-performance Data Management for Whole Slide Image Analysis in Digital Pathology.

Haoju Leng, Ruining Deng, Shunxing Bao, Dazheng Fang, Bryan A. Millis, Yucheng Tang, Haichun Yang, Xiao Wang, Yifan Peng, Lipeng Wan, Yuankai Huo

CoRR, 2023

Multi-scale Multi-site Renal Microvascular Structures Segmentation for Whole Slide Imaging in Renal Pathology.

Franklin Hu, Ruining Deng, Shunxing Bao, Haichun Yang, Yuankai Huo

CoRR, 2023

Feasibility of Universal Anomaly Detection without Knowing the Abnormality in Medical Images.

Can Cui, Yaohong Wang, Shunxing Bao, Yucheng Tang, Ruining Deng, Lucas W. Remedios, Zuhayr Asad, Joseph T. Roland, Ken S. Lau, Qi Liu, Lori A. Coburn, Keith T. Wilson, Bennett A. Landman, Yuankai Huo

CoRR, 2023

All-in-SAM: from Weak Annotation to Pixel-wise Nuclei Segmentation with Prompt-based Finetuning.

Can Cui, Ruining Deng, Quan Liu, Tianyuan Yao, Shunxing Bao, Lucas W. Remedios, Yucheng Tang, Yuankai Huo

CoRR, 2023

Robust Fiber ODF Estimation Using Deep Constrained Spherical Deconvolution for Diffusion MRI.

Tianyuan Yao, Francois Rheault, Leon Y. Cai, Vishwesh Nath, Zuhayr Asad, Nancy Newlin, Can Cui, Ruining Deng, Karthik Ramadass, Andrea T. Shafer, Susan M. Resnick, Kurt Schilling, Bennett A. Landman, Yuankai Huo

CoRR, 2023

Democratizing Pathological Image Segmentation with Lay Annotators via Molecular-empowered Learning.

Ruining Deng, Yanwei Li, Peize Li, Jiacheng Wang, Lucas W. Remedios, Saydolimkhon Agzamkhodjaev, Zuhayr Asad, Quan Liu, Can Cui, Yucheng Tang, Haichun Yang, Yuankai Huo

CoRR, 2023

An Accelerated Pipeline for Multi-label Renal Pathology Image Segmentation at the Whole Slide Image Level.

Haoju Leng, Ruining Deng, Zuhayr Asad, R. Michael Womick, Haichun Yang, Lipeng Wan, Yuankai Huo

CoRR, 2023

An End-to-end Pipeline for 3D Slide-wise Multi-stain Renal Pathology Registration.

Peize Li, Ruining Deng, Yuankai Huo

CoRR, 2023

Exploring shared memory architectures for end-to-end gigapixel deep learning.

Lucas W. Remedios, Leon Y. Cai, Samuel W. Remedios, Karthik Ramadass, Aravind R. Krishnan, Ruining Deng, Can Cui, Shunxing Bao, Lori A. Coburn, Yuankai Huo, Bennett A. Landman

CoRR, 2023

Segment Anything Model (SAM) for Digital Pathology: Assess Zero-shot Segmentation on Whole Slide Imaging.

Ruining Deng, Can Cui, Quan Liu, Tianyuan Yao, Lucas W. Remedios, Shunxing Bao, Bennett A. Landman, Lee E. Wheless, Lori A. Coburn, Keith T. Wilson, Yaohong Wang, Shilin Zhao, Agnes B. Fogo, Haichun Yang, Yucheng Tang, Yuankai Huo

CoRR, 2023

Cross-scale Multi-instance Learning for Pathological Image Diagnosis.

Ruining Deng, Can Cui, Lucas W. Remedios, Shunxing Bao, R. Michael Womick, Sophie Chiron, Jia Li, Joseph T. Roland, Ken S. Lau, Qi Liu, Keith T. Wilson, Yaohong Wang, Lori A. Coburn, Bennett A. Landman, Yuankai Huo

CoRR, 2023

Deep constrained spherical deconvolution for robust harmonization.

Tianyuan Yao, Francois Rheault, Leon Y. Cai, Vishwesh Nath, Zuhayr Asad, Nancy Newlin, Can Cui, Ruining Deng, Karthik Ramadass, Kurt Schilling, Bennett A. Landman, Yuankai Huo

Proceedings of the Medical Imaging 2023: Image Processing, 2023

Alleviating tiling effect by random walk sliding window in high-resolution histological whole slide image synthesis.

Shunxing Bao, Ho Hin Lee, Qi Yang, Lucas Walker Remedios, Ruining Deng, Can Cui, Leon Yichen Cai, Kaiwen Xu, Xin Yu, Sophie Chiron, Yike Li, Nathan Heath Patterson, Yaohong Wang, Jia Li, Qi Liu, Ken S. Lau, Joseph T. Roland, Lori A. Coburn, Keith T. Wilson, Bennett A. Landman, Yuankai Huo

Proceedings of the Medical Imaging with Deep Learning, 2023

Democratizing Pathological Image Segmentation with Lay Annotators via Molecular-Empowered Learning.

Ruining Deng, Yanwei Li, Peize Li, Jiacheng Wang, Lucas W. Remedios, Saydolimkhon Agzamkhodjaev, Zuhayr Asad, Quan Liu, Can Cui, Yaohong Wang, Yihan Wang, Yucheng Tang, Haichun Yang, Yuankai Huo

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2023, 2023

Feasibility of Universal Anomaly Detection Without Knowing the Abnormality in Medical Images.

Can Cui, Yaohong Wang, Shunxing Bao, Yucheng Tang, Ruining Deng, Lucas W. Remedios, Zuhayr Asad, Joseph T. Roland, Ken S. Lau, Qi Liu, Lori A. Coburn, Keith T. Wilson, Bennett A. Landman, Yuankai Huo

Proceedings of the Medical Image Learning with Limited and Noisy Data, 2023

2022

Circle Representation for Medical Object Detection.

Ethan H. Nguyen, Haichun Yang, Ruining Deng, Yuzhe Lu, Zheyu Zhu, Joseph T. Roland, Le Lu, Bennett A. Landman, Agnes B. Fogo, Yuankai Huo

IEEE Trans. Medical Imaging, 2022

Compound Figure Separation of Biomedical Images: Mining Large Datasets for Self-supervised Learning.

Tianyuan Yao, Chang Qu, Jun Long, Quan Liu, Ruining Deng, Yuanhan Tian, Jiachen Xu, Aadarsh Jha, Zuhayr Asad, Shunxing Bao, Mengyang Zhao, Agnes B. Fogo, Bennett A. Landman, Haichun Yang, Catie Chang, Yuankai Huo

CoRR, 2022

Omni-Seg+: A Scale-aware Dynamic Network for Pathological Image Segmentation.

Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Jun Long, Zuhayr Asad, R. Michael Womick, Zheyu Zhu, Agnes B. Fogo, Shilin Zhao, Haichun Yang, Yuankai Huo

CoRR, 2022

Survival Prediction of Brain Cancer with Incomplete Radiology, Pathology, Genomics, and Demographic Data.

Can Cui, Han Liu, Quan Liu, Ruining Deng, Zuhayr Asad, Yaohong Wang, Shilin Zhao, Haichun Yang, Bennett A. Landman, Yuankai Huo

CoRR, 2022

Large-Scale Patch-Wise Pathological Image Feature Dataset with a Hardware-agnostic Feature Extraction Tool.

Zheyu Zhu, Ruining Deng, Quan Liu, Zuhayr Asad, Can Cui, Tianyuan Yao, Yuankai Huo

Proceedings of the Medical Image Understanding and Analysis - 26th Annual Conference, 2022

Evaluating transformer-based semantic segmentation networks for pathological image segmentation.

Cam Nguyen, Zuhayr Asad, Ruining Deng, Yuankai Huo

Proceedings of the Medical Imaging 2022: Image Processing, 2022

Single Dynamic Network for Multi-label Renal Pathology Image Segmentation.

Ruining Deng, Quan Liu, Can Cui, Zuhayr Asad, Haichun Yang, Yuankai Huo

Proceedings of the International Conference on Medical Imaging with Deep Learning, 2022

CircleSnake: Instance Segmentation with Circle Representation.

Ethan H. Nguyen, Haichun Yang, Zuhayr Asad, Ruining Deng, Agnes B. Fogo, Yuankai Huo

Proceedings of the Machine Learning in Medical Imaging - 13th International Workshop, 2022

Leverage Supervised and Self-supervised Pretrain Models for Pathological Survival Analysis via a Simple and Low-cost Joint Representation Tuning.

Quan Liu, Can Cui, Ruining Deng, Zuhayr Asad, Tianyuan Yao, Zheyu Zhu, Yuankai Huo

Proceedings of the Resource-Efficient Medical Image Analysis - First MICCAI Workshop, 2022

Cross-Scale Attention Guided Multi-instance Learning for Crohn's Disease Diagnosis with Pathological Images.

Ruining Deng, Can Cui, Lucas W. Remedios, Shunxing Bao, R. Michael Womick, Sophie Chiron, Jia Li, Joseph T. Roland, Ken S. Lau, Qi Liu, Keith T. Wilson, Yaohong Wang, Lori A. Coburn, Bennett A. Landman, Yuankai Huo

Proceedings of the Multiscale Multimodal Medical Imaging - Third International Workshop, 2022

Survival Prediction of Brain Cancer with Incomplete Radiology, Pathology, Genomic, and Demographic Data.

Can Cui, Han Liu, Quan Liu, Ruining Deng, Zuhayr Asad, Yaohong Wang, Shilin Zhao, Haichun Yang, Bennett A. Landman, Yuankai Huo

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2022, 2022

MxIF Q-score: Biology-Informed Quality Assurance for Multiplexed Immunofluorescence Imaging.

Shunxing Bao, Jia Li, Can Cui, Yucheng Tang, Ruining Deng, Lucas W. Remedios, Ho Hin Lee, Sophie Chiron, Nathan Heath Patterson, Ken S. Lau, Lori A. Coburn, Keith T. Wilson, Joseph T. Roland, Bennett A. Landman, Qi Liu, Yuankai Huo

Proceedings of the Medical Optical Imaging and Virtual Microscopy Image Analysis, 2022

Contrastive learning meets transfer learning: a case study in medical image analysis.

Yuzhe Lu, Aadarsh Jha, Ruining Deng, Yuankai Huo

Proceedings of the Medical Imaging 2022: Computer-Aided Diagnosis, 2022

2021

Map3D: Registration-Based Multi-Object Tracking on 3D Serial Whole Slide Images.

Ruining Deng, Haichun Yang, Aadarsh Jha, Yuzhe Lu, Peng Chu, Agnes B. Fogo, Yuankai Huo

IEEE Trans. Medical Imaging, 2021

Omni-Seg: A Single Dynamic Network for Multi-label Renal Pathology Image Segmentation using Partially Labeled Data.

Ruining Deng, Quan Liu, Can Cui, Zuhayr Asad, Haichun Yang, Yuankai Huo

CoRR, 2021

Towards Annotation-free Instance Segmentation and Tracking with Adversarial Simulations.

Quan Liu, Isabella M. Gaeta, Mengyang Zhao, Ruining Deng, Aadarsh Jha, Bryan A. Millis, Anita Mahadevan-Jansen, Matthew J. Tyska, Yuankai Huo

CoRR, 2021

ASIST: Annotation-free synthetic instance segmentation and tracking by adversarial simulations.

Quan Liu, Isabella M. Gaeta, Mengyang Zhao, Ruining Deng, Aadarsh Jha, Bryan A. Millis, Anita Mahadevan-Jansen, Matthew J. Tyska, Yuankai Huo

Comput. Biol. Medicine, 2021

Improve global glomerulosclerosis classification with imbalanced data using CircleMix augmentation.

Yuzhe Lu, Haichun Yang, Zheyu Zhu, Ruining Deng, Agnes B. Fogo, Yuankai Huo

Proceedings of the Medical Imaging 2021: Image Processing, Online, February 15-19, 2021, 2021

VoxelEmbed: 3D Instance Segmentation and Tracking with Voxel Embedding based Deep Learning.

Mengyang Zhao, Quan Liu, Aadarsh Jha, Ruining Deng, Tianyuan Yao, Anita Mahadevan-Jansen, Matthew J. Tyska, Bryan A. Millis, Yuankai Huo

Proceedings of the Machine Learning in Medical Imaging - 12th International Workshop, 2021

Compound Figure Separation of Biomedical Images with Side Loss.

Tianyuan Yao, Chang Qu, Quan Liu, Ruining Deng, Yuanhan Tian, Jiachen Xu, Aadarsh Jha, Shunxing Bao, Mengyang Zhao, Agnes B. Fogo, Bennett A. Landman, Catie Chang, Haichun Yang, Yuankai Huo

Proceedings of the Deep Generative Models, and Data Augmentation, Labelling, and Imperfections, 2021

SimTriplet: Simple Triplet Representation Learning with a Single GPU.

Quan Liu, Peter C. Louis, Yuzhe Lu, Aadarsh Jha, Mengyang Zhao, Ruining Deng, Tianyuan Yao, Joseph T. Roland, Haichun Yang, Shilin Zhao, Lee E. Wheless, Yuankai Huo

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2021 - 24th International Conference, Strasbourg, France, September 27, 2021

CaCL: Class-Aware Codebook Learning for Weakly Supervised Segmentation on Diffuse Image Patterns.

Ruining Deng, Quan Liu, Shunxing Bao, Aadarsh Jha, Catie Chang, Bryan A. Millis, Matthew J. Tyska, Yuankai Huo

Proceedings of the Deep Generative Models, and Data Augmentation, Labelling, and Imperfections, 2021

2020

ASIST: Annotation-free synthetic instance segmentation and tracking for microscope video analysis.

Quan Liu, Isabella M. Gaeta, Mengyang Zhao, Ruining Deng, Aadarsh Jha, Bryan A. Millis, Anita Mahadevan-Jansen, Matthew J. Tyska, Yuankai Huo

CoRR, 2020

Instance Segmentation for Whole Slide Imaging: End-to-End or Detect-Then-Segment.

Aadarsh Jha, Haichun Yang, Ruining Deng, Meghan E. Kapp, Agnes B. Fogo, Yuankai Huo

CoRR, 2020

CircleNet: Anchor-free Detection with Circle Representation.

Haichun Yang, Ruining Deng, Yuzhe Lu, Zheyu Zhu, Ye Chen, Joseph T. Roland, Le Lu, Bennett A. Landman, Agnes B. Fogo, Yuankai Huo

CoRR, 2020

EasierPath: An Open-Source Tool for Human-in-the-Loop Deep Learning of Renal Pathology.

Zheyu Zhu, Yuzhe Lu, Ruining Deng, Haichun Yang, Agnes B. Fogo, Yuankai Huo

Proceedings of the Interpretable and Annotation-Efficient Learning for Medical Image Computing, 2020

CircleNet: Anchor-Free Glomerulus Detection with Circle Representation.

Haichun Yang, Ruining Deng, Yuzhe Lu, Zheyu Zhu, Ye Chen, Joseph T. Roland, Le Lu, Bennett A. Landman, Agnes B. Fogo, Yuankai Huo

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2020, 2020