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Haichun Yang
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2020 – today
- 2024
- [c15]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:
PrPSeg: Universal Proposition Learning for Panoramic Renal Pathology Segmentation. CVPR 2024: 11736-11746 - [c14]Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Juming Xiong, Shunxing Bao, Hao Li, Mengmeng Yin, Yu Wang, Shilin Zhao, Yucheng Tang, Haichun Yang, Yuankai Huo:
HATs: Hierarchical Adaptive Taxonomy Segmentation for Panoramic Pathology Image Analysis. MICCAI (4) 2024: 155-166 - [i35]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:
PrPSeg: Universal Proposition Learning for Panoramic Renal Pathology Segmentation. CoRR abs/2402.19286 (2024) - [i34]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:
Circle Representation for Medical Instance Object Segmentation. CoRR abs/2403.11507 (2024) - [i33]Jialin Yue, Tianyuan Yao, Ruining Deng, Quan Liu, Juming Xiong, Haichun Yang, Yuankai Huo:
Weighted Circle Fusion: Ensembling Circle Representation from Different Object Detection Results. CoRR abs/2406.19540 (2024) - [i32]Ruining Deng, Quan Liu, Can Cui, Tianyuan Yao, Juming Xiong, Shunxing Bao, Hao Li, Mengmeng Yin, Yu Wang, Shilin Zhao, Yucheng Tang, Haichun Yang, Yuankai Huo:
HATs: Hierarchical Adaptive Taxonomy Segmentation for Panoramic Pathology Image Analysis. CoRR abs/2407.00596 (2024) - [i31]Yucheng Tang, Yufan He, Vishwesh Nath, Pengfei Guo, Ruining Deng, Tianyuan Yao, Quan Liu, Can Cui, Mengmeng Yin, Ziyue Xu, Holger Roth, Daguang Xu, Haichun Yang, Yuankai Huo:
HoloHisto: End-to-end Gigapixel WSI Segmentation with 4K Resolution Sequential Tokenization. CoRR abs/2407.03307 (2024) - [i30]Can Cui, Ruining Deng, Junlin Guo, Quan Liu, Tianyuan Yao, Haichun Yang, Yuankai Huo:
PFPs: Prompt-guided Flexible Pathological Segmentation for Diverse Potential Outcomes Using Large Vision and Language Models. CoRR abs/2407.09979 (2024) - [i29]Lining Yu, Mengmeng Yin, Ruining Deng, Quan Liu, Tianyuan Yao, Can Cui, Yu Wang, Yaohong Wang, Shilin Zhao, Haichun Yang, Yuankai Huo:
Adapting Mouse Pathological Model to Human Glomerular Lesion Segmentation. CoRR abs/2407.18390 (2024) - [i28]Junlin Guo, Siqi Lu, Can Cui, Ruining Deng, Tianyuan Yao, Zhewen Tao, Yizhe Lin, Marilyn Lionts, Quan Liu, Juming Xiong, Catie Chang, Mitchell Wilkes, Mengmeng Yin, Haichun Yang, Yuankai Huo:
Assessment of Cell Nuclei AI Foundation Models in Kidney Pathology. CoRR abs/2408.06381 (2024) - [i27]Junchao Zhu, Mengmeng Yin, Ruining Deng, Yitian Long, Yu Wang, Yaohong Wang, Shilin Zhao, Haichun Yang, Yuankai Huo:
Cross-Species Data Integration for Enhanced Layer Segmentation in Kidney Pathology. CoRR abs/2408.09278 (2024) - [i26]Junlin Guo, Siqi Lu, Can Cui, Ruining Deng, Tianyuan Yao, Zhewen Tao, Yizhe Lin, Marilyn Lionts, Quan Liu, Juming Xiong, Yu Wang, Shilin Zhao, Catie Chang, Mitchell Wilkes, Mengmeng Yin, Haichun Yang, Yuankai Huo:
How Good Are We? Evaluating Cell AI Foundation Models in Kidney Pathology with Human-in-the-Loop Enrichment. CoRR abs/2411.00078 (2024) - 2023
- [j3]Ruining Deng
, Quan Liu
Omni-Seg: A Scale-Aware Dynamic Network for Renal Pathological Image Segmentation. IEEE Trans. Biomed. Eng. 70(9): 2636-2644 (2023) - [c13]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:
Democratizing Pathological Image Segmentation with Lay Annotators via Molecular-Empowered Learning. MICCAI (6) 2023: 497-507 - [c12]Haoju Leng, Ruining Deng, Zuhayr Asad, R. Michael Womick, Haichun Yang, Lipeng Wan, Yuankai Huo:
An accelerated pipeline for multi-label renal pathology image segmentation at the whole slide image level. Digital and Computational Pathology 2023 - [i25]Ruining Deng, Can Cui, Quan Liu, Tianyuan Yao, Lucas W. Remedios, Shunxing Bao, Bennett A. Landman, Lee E. Wheless
Segment Anything Model (SAM) for Digital Pathology: Assess Zero-shot Segmentation on Whole Slide Imaging. CoRR abs/2304.04155 (2023) - [i24]Haoju Leng, Ruining Deng, Zuhayr Asad, R. Michael Womick, Haichun Yang, Lipeng Wan, Yuankai Huo:
An Accelerated Pipeline for Multi-label Renal Pathology Image Segmentation at the Whole Slide Image Level. CoRR abs/2305.14566 (2023) - [i23]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:
Democratizing Pathological Image Segmentation with Lay Annotators via Molecular-empowered Learning. CoRR abs/2306.00047 (2023) - [i22]Franklin Hu, Ruining Deng, Shunxing Bao, Haichun Yang, Yuankai Huo:
Multi-scale Multi-site Renal Microvascular Structures Segmentation for Whole Slide Imaging in Renal Pathology. CoRR abs/2308.05782 (2023) - [i21]Haoju Leng, Ruining Deng, Shunxing Bao, Dazheng Fang, Bryan A. Millis, Yucheng Tang, Haichun Yang, Xiao Wang, Yifan Peng, Lipeng Wan, Yuankai Huo:
High-performance Data Management for Whole Slide Image Analysis in Digital Pathology. CoRR abs/2308.05784 (2023) - [i20]Xueyuan Li, Ruining Deng, Yucheng Tang, Shunxing Bao, Haichun Yang, Yuankai Huo:
Leverage Weakly Annotation to Pixel-wise Annotation via Zero-shot Segment Anything Model for Molecular-empowered Learning. CoRR abs/2308.05785 (2023) - [i19]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:
Spatial Pathomics Toolkit for Quantitative Analysis of Podocyte Nuclei with Histology and Spatial Transcriptomics Data in Renal Pathology. CoRR abs/2308.06288 (2023) - [i18]Muhao Liu, Chenyang Qi, Shunxing Bao, Quan Liu, Ruining Deng, Yu Wang, Shilin Zhao, Haichun Yang, Yuankai Huo:
Evaluation Kidney Layer Segmentation on Whole Slide Imaging using Convolutional Neural Networks and Transformers. CoRR abs/2309.02563 (2023) - 2022
- [j2]Ethan H. Nguyen
Circle Representation for Medical Object Detection. IEEE Trans. Medical Imaging 41(3): 746-754 (2022) - [c11]Ethan H. Nguyen, Haichun Yang, Zuhayr Asad
CircleSnake: Instance Segmentation with Circle Representation. MLMI@MICCAI 2022: 298-306 - [c10]Can Cui, Han Liu, Quan Liu, Ruining Deng
Survival Prediction of Brain Cancer with Incomplete Radiology, Pathology, Genomic, and Demographic Data. MICCAI (5) 2022: 626-635 - [c9]Ruining Deng, Quan Liu, Can Cui, Zuhayr Asad, Haichun Yang, Yuankai Huo:
Single Dynamic Network for Multi-label Renal Pathology Image Segmentation. MIDL 2022: 304-314 - [c8]Ruining Deng, Haichun Yang, Zuhayr Asad, Zheyu Zhu, Shiru Wang, Lee E. Wheless, Agnes B. Fogo, Yuankai Huo:
Dense multi-object 3D glomerular reconstruction and quantification on 2D serial section whole slide images. Digital and Computational Pathology 2022 - [c7]Tianyuan Yao, Yuzhe Lu, Ruining Deng, Zheyu Zhu, Zuhayr Asad, Haichun Yang, Lee E. Wheless, Agnes B. Fogo, Yuankai Huo:
Self-supervised learning with large-scale web image mining for characterizing glomerular lesions. Digital and Computational Pathology 2022 - [i17]Yuzhe Lu, Haichun Yang, Zuhayr Asad, Zheyu Zhu, Tianyuan Yao, Jiachen Xu, Agnes B. Fogo, Yuankai Huo:
Holistic Fine-grained GGS Characterization: From Detection to Unbalanced Classification. CoRR abs/2202.00087 (2022) - [i16]Can Cui, Han Liu, Quan Liu, Ruining Deng, Zuhayr Asad, Yaohong Wang, Shilin Zhao, Haichun Yang, Bennett A. Landman, Yuankai Huo:
Survival Prediction of Brain Cancer with Incomplete Radiology, Pathology, Genomics, and Demographic Data. CoRR abs/2203.04419 (2022) - [i15]Can Cui, Haichun Yang, Yaohong Wang, Shilin Zhao, Zuhayr Asad, Lori A. Coburn, Keith T. Wilson, Bennett A. Landman, Yuankai Huo:
Deep Multi-modal Fusion of Image and Non-image Data in Disease Diagnosis and Prognosis: A Review. CoRR abs/2203.15588 (2022) - [i14]Tianyuan Yao, Yuzhe Lu, Jun Long, Aadarsh Jha, Zheyu Zhu, Zuhayr Asad, Haichun Yang, Agnes B. Fogo, Yuankai Huo:
Glo-In-One: Holistic Glomerular Detection, Segmentation, and Lesion Characterization with Large-scale Web Image Mining. CoRR abs/2206.00123 (2022) - [i13]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:
Omni-Seg+: A Scale-aware Dynamic Network for Pathological Image Segmentation. CoRR abs/2206.13632 (2022) - [i12]Tianyuan Yao, Chang Qu, Jun Long, Quan Liu, Ruining Deng, Yuanhan Tian, Jiachen Xu, Aadarsh Jha, Zuhayr Asad
Compound Figure Separation of Biomedical Images: Mining Large Datasets for Self-supervised Learning. CoRR abs/2208.14357 (2022) - [i11]Ethan H. Nguyen, Haichun Yang, Zuhayr Asad, Ruining Deng, Agnes B. Fogo, Yuankai Huo:
CircleSnake: Instance Segmentation with Circle Representation. CoRR abs/2211.01254 (2022) - 2021
- [j1]Ruining Deng
Map3D: Registration-Based Multi-Object Tracking on 3D Serial Whole Slide Images. IEEE Trans. Medical Imaging 40(7): 1924-1933 (2021) - [c6]Xing Li, Haichun Yang, Jiaxin He, Aadarsh Jha, Agnes B. Fogo, Lee E. Wheless
Beds: Bagging Ensemble Deep Segmentation For Nucleus Segmentation With Testing Stage Stain Augmentation. ISBI 2021: 659-662 - [c5]Quan Liu, Peter C. Louis, Yuzhe Lu, Aadarsh Jha, Mengyang Zhao, Ruining Deng
SimTriplet: Simple Triplet Representation Learning with a Single GPU. MICCAI (2) 2021: 102-112 - [c4]Tianyuan Yao, Chang Qu, Quan Liu, Ruining Deng
Compound Figure Separation of Biomedical Images with Side Loss. DGM4MICCAI/DALI@MICCAI 2021: 173-183 - [c3]Yuzhe Lu, Haichun Yang, Zheyu Zhu, Ruining Deng
Improve global glomerulosclerosis classification with imbalanced data using CircleMix augmentation. Image Processing 2021 - [i10]Yuzhe Lu, Haichun Yang, Zheyu Zhu, Ruining Deng, Agnes B. Fogo, Yuankai Huo:
Improve Global Glomerulosclerosis Classification with Imbalanced Data using CircleMix Augmentation. CoRR abs/2101.07654 (2021) - [i9]Xing Li, Haichun Yang, Jiaxin He, Aadarsh Jha, Agnes B. Fogo, Lee E. Wheless, Shilin Zhao, Yuankai Huo:
BEDS: Bagging ensemble deep segmentation for nucleus segmentation with testing stage stain augmentation. CoRR abs/2102.08990 (2021) - [i8]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:
SimTriplet: Simple Triplet Representation Learning with a Single GPU. CoRR abs/2103.05585 (2021) - [i7]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:
Compound Figure Separation of Biomedical Images with Side Loss. CoRR abs/2107.08650 (2021) - [i6]Ethan H. Nguyen, Haichun Yang, Ruining Deng, Yuzhe Lu, Zheyu Zhu, Joseph T. Roland, Le Lu, Bennett A. Landman, Agnes B. Fogo, Yuankai Huo:
Circle Representation for Medical Object Detection. CoRR abs/2110.12093 (2021) - [i5]Ruining Deng, Quan Liu, Can Cui, Zuhayr Asad, Haichun Yang, Yuankai Huo:
Omni-Seg: A Single Dynamic Network for Multi-label Renal Pathology Image Segmentation using Partially Labeled Data. CoRR abs/2112.12665 (2021) - 2020
- [c2]Haichun Yang, Ruining Deng
CircleNet: Anchor-Free Glomerulus Detection with Circle Representation. MICCAI (4) 2020: 35-44 - [c1]Zheyu Zhu, Yuzhe Lu, Ruining Deng
EasierPath: An Open-Source Tool for Human-in-the-Loop Deep Learning of Renal Pathology. iMIMIC/MIL3ID/LABELS@MICCAI 2020: 214-222 - [i4]Haichun Yang, Ruining Deng, Yuzhe Lu, Zheyu Zhu, Ye Chen, Joseph T. Roland, Le Lu, Bennett A. Landman, Agnes B. Fogo, Yuankai Huo:
CircleNet: Anchor-free Detection with Circle Representation. CoRR abs/2006.02474 (2020) - [i3]Ruining Deng, Haichun Yang, Aadarsh Jha, Yuzhe Lu, Peng Chu, Agnes B. Fogo, Yuankai Huo:
Map3D: Registration Based Multi-Object Tracking on 3D Serial Whole Slide Images. CoRR abs/2006.06038 (2020) - [i2]Aadarsh Jha, Haichun Yang, Ruining Deng, Meghan E. Kapp, Agnes B. Fogo, Yuankai Huo:
Instance Segmentation for Whole Slide Imaging: End-to-End or Detect-Then-Segment. CoRR abs/2007.03593 (2020) - [i1]Zheyu Zhu, Yuzhe Lu, Ruining Deng, Haichun Yang, Agnes B. Fogo, Yuankai Huo:
EasierPath: An Open-source Tool for Human-in-the-loop Deep Learning of Renal Pathology. CoRR abs/2007.13952 (2020)
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