Research

2021

	Circle Representation for Medical Object Detection Ethan H. Nguyen, Haichun Yang, Ruining Deng,Yuzhe Lu, Zheyu Zhu, Joseph T. Roland, Le Lu, BennettA. Landman, Agnes B. Fogo, Yuankai Huo IEEE Transactions on Medical Imaging
	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 MICCAI 2021[arxiv]
	From Brain to Body: Learning Low-Frequency Respiration and Cardiac Signals from fMRI Dynamics Roza Bayrak, Colin Hansen, Nafis Ahmed, Ilwoo Lyu, Yuankai Huo, Catie Chang MICCAI 2021[arxiv]
	Pancreas CT Segmentation by Predictive Phenotyping Yucheng Tang, Riqiang Gao, Ho Hin Lee, Qi Yang, Xin Yu, Yuyin Zhou, Shunxing Bao, Yuankai Huo, Jeffrey Spraggins, Jack Virostko, Zhoubing Xu, Bennet A. Landman MICCAI 2021
	Lung Cancer Risk Estimation with Incomplete Data: A Joint Missing Imputation Perspective Riqiang Gao, Yucheng Tang, Kaiwen Xu, Ho Hin Lee, Steve A. Deppen, Kim L. Sandler, Pierre P. Massion, Thomas A. Lasko, Yuankai Huo, Bennett A. Landman MICCAI 2021[arxiv]
	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 MLMI 2021[arxiv]
	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 DALI 2021[arxiv]
	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 DGM4MICCAI 2021[arxiv]
	Random Multi-Channel Image Synthesis for Multiplexed Immunofluorescence Imaging Shunxing Bao, Yucheng Tang, Ho Hin Lee, Riqiang Gao, Sophie Chiron, Ilwoo Lyu, Lori A. Coburn, Keith T. Wilson, Joseph T. Roland, Bennett A. Landman, Yuankai Huo COMPAY 2021
	Map3D: Registration Based Multi-Object Tracking on 3D Serial Whole Slide Images Ruining Deng, Haichun Yang, Aadarsh Jha, Yuzhe Lu, Peng Chu, Agnes Fogo, Yuankai Huo IEEE Transactions on Medical Imaging[arxiv]
	Faster Mean-shift: GPU-accelerated Embedding-clustering for Cell Segmentation and Tracking Mengyang Zhao, Aadarsh Jha, Quan Liu, Bryan A. Millis, Anita Mahadevan-Jansen, Le Lu, Bennett A. Landman, Matthew J.Tyskac, Yuankai Huo Medical Image Analysis[arXiv]
	AI Applications in Renal Pathology Yuankai Huo, Ruining Deng, Quan Liu, Agnes B. Fogo, Haichun Yang Kidney International
	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 Computers in Biology and Medicine [arxiv]
	BEDs: Bagging Ensemble Deep Segmentation for Nucleus Segmentation with Testing Stage Stain Augmentation Xing Li, Haichun Yang, Jiaxin He, Aadarsh Jha, Agnes B. Fogo, Lee E. Wheless, Shilin Zhao, Yuankai Huo ISBI 2021 [arxiv]
	GAN based Unsupervised Segmentation: Should We Match the Exact Number of Objects Quan Liu, Isabella M. Gaeta, Bryan A. Millis, Matthew J. Tyska, Yuankai Huo SPIE 2021
	Improve Global Glomerulosclerosis Classification with Imbalanced Data using CircleMix Augmentation Yuzhe Lu, Haichun Yang, Zheyu Zhu, Ruining Deng, Agnes B. Fogo, Yuankai Huo SPIE 2021
	A Limitation of Acyclic Oriented Graphs Matching as Cell Tracking Accuracy Measure when Evaluating Mitosis Ye Chen, Yuankai Huo SPIE 2021
	Measure Partial Liver Volumetric Variations from Paired Inspiratory-expiratory Chest CT Scans Can Luo, James G. Terry, Yucheng Tang, Kaiwen Xu, Pierre P. Massion, Bennett A. Landman, J. Jeffery Carr, Yuankai Huo SPIE 2021

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 MICCAI 2020 [arxiv]
	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 MICCAI LABEL Workshop 2020 [arxiv]
	A Deep Pattern Recognition Approach for Inferring Respiratory Volume Fluctuations from fMRI Data Roza Bayrak, Jorge Salas, Yuankai Huo, Catie Chang MICCAI 2020
	Reliable Liver Fibrosis Assessment from Ultrasound using Global Hetero-Image Fusion and View-Specific Parameterization Bowen Li, Ke Yan, Dar‐In Tai, Yuankai Huo, Le Lu, Jing Xiao, Adam Harrison MICCAI 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 Journal of Medical Imaging [arxiv]
	Lesion Harvester: Iteratively Mining Unlabeled Lesions and Hard-Negative Examples at Scale Jinzheng Cai, Adam P. Harrison, Youjing Zheng, Ke Yan, Yuankai Huo, Jing Xiao, Lin Yang, Le Lu IEEE Transactions on Medical Imaging [arxiv]
	Harvesting, Detecting, and Characterizing Liver Lesions from Large-scale Multi-phase CT Data via Deep Dynamic Texture Learning Yuankai Huo, Jinzheng Cai, Chi-Tung Cheng, Ashwin Raju, Ke Yan, Bennett A. Landman, Jing Xiao, Le Lu, Chien-Hung Liao, Adam Harrison [arxiv]
	The Value of Nullspace Tuning Using Partial Label Information Colin B. Hansen, Vishwesh Nath, Diego A. Mesa, Yuankai Huo, Bennett A. Landman, Thomas A. Lasko [arxiv]
	JSSR: A Joint Synthesis, Segmentation, and Registration System for 3D Multi-Modal Image Alignment of Large-scale Pathological CT Scans Fengze Liu, Jingzheng Cai, Yuankai Huo, Chi-Tung Cheng, Ashwin Raju, Dakai Jin, Jing Xiao, Alan Yuille, Le Lu, ChienHung Liao, Adam P Harrison ECCV 2020 [arxiv]
	Co-Heterogeneous and Adaptive Segmentation from Multi-Source and Multi-Phase CT Imaging Data: A Study on Pathological Liver and Lesion Segmentation Ashwin Raju, Chi-Tung Cheng, Yuankai Huo, Jinzheng Cai, Junzhou Huang, Jing Xiao, Le Lu, ChienHung Liao, Adam P Harrison ECCV 2020 [arxiv]