Journal Papers

[1].         Hui Liu, Yuanjie Zheng, Dong Liang, Pinpin Tang, Fuquan Ren, Lina Zhang, Weizuo Zhao. Total variation based DCE-MRI decomposition by separating lesion from background for time-intensity curve estimation. Medical Physics. (2017)
[2].         Sujuan Hou, Ling Chen, Dacheng Tao, Shangbo Zhou, Wenjie Liu, Yuanjie Zheng*.“Multi-Layer Multi-View Topic Model for Classifying Advertising Video,” Pattern Recognition. (2017)
[3].         Xiaodan Sui, Yuanjie Zheng*, Benzheng Wei, Hongsheng Bi, Jianfeng Wu, Xuemei Pan, Yilong Yin, Shaoting Zhang,'Choroid Segmentation from Optical Coherence Tomography with Graph-Edge Weights Learned from Deep Convolutional Neural Networks' Neurocomputing (2017)
[4].         Yuanjie Zheng*,Yu Wang, Wanzhen Jiao, Sujuan Hou, Yanju Ren, Maoling Qin, Dewen Hou, Chao Luo, Hong Wang, James Geem, Bojun Zhao,’Joint alignment of multispectral images via semidefinite programming’, Biomedical Optics Express (2017)
[5].         Yuchou Chang, Haifeng Wang, Yuanjie Zheng*, and Hong Lin, 'Instrument Variables for Reducing Noise in Parallel Mri Reconstruction', Biomed Research International (2016).in press
[6].         Yunlong He, Yuanjie Zheng*, Yanju Ren  Yanna Zhao, Jian Lian, and James Gee, 'Retinal Image De-Noising Via Bilateral Filter with a Spatial Kernel of Optimally Oriented Line Spread Function', Computational and Mathematical Methods in Medicine, In press (2016).
[7].         Y. Zheng, P. Parikh, B. L. VanderBeek, and J. Gee, “Automated Quantification of Morphologic Features and Vasculature of Choroid on Enhanced Depth Imaging Optical Coherence Tomography (EDI-OCT),” Investigative Ophthalmology & Visual Science, vol. 57, no. 12, p. 4652, 2016
[8].         C. Luo, X. Zhang, and Y. Zheng, “Chaotic evolution of prisoner’s dilemma game with volunteering on interdependent networks,” Communications in Nonlinear Science and Numerical Simulation, 2016
[9].         Q. Sun, Y. Ren*, Y. Zheng, M. Sun, and Y Zheng, ' Superordinate Level Processing Has Priority over Basic-Level Processing in Scene Gist Recognition', i-Perception (2016).
[10].         Yuanjie Zheng*, Shaoting Zhang, Junzhou Huang, and Weidong Cai, 'Guest Editorial: Special Issue on Advances in Computing Techniques for Big Medial Image Data', Neurocomputing (2016).
[11].         J. Lin, Y. Zheng*, W. Jiao, B. Zhao, S. Zhang, J. Gee, and R. Xiao, 'Groupwise Registration of Sequential Images from Multispectral Imaging (Msi) of the Retina and Choroid', Opt. Express, 24, 25277-25290 (2016).
[12].        Jingjing Liu, Shaoting Zhang, Wei Liu, Cheng Deng, Yuanjie Zheng*, and Dimitris N Metaxas, ' Scalable Mammogram Retrieval Using Composite Anchor Graph Hashing with Iterative Quantization', IEEE Transactions on Circuits and Systems for Video Technology (2016).
[13].        闫芳,宋双,连剑,任衍具,尹义龙,郑元杰, '基于em算法的眼底oct图像反卷积去模糊技术的研究', 数据采集与处理, 已采用 (2016).
[14].        Chao Luo*, Xiaolin Zhang, Rui Shao, and YuanJie Zheng, 'Controllability of Boolean Networks Via Input Controls under Harvey's Update Scheme', Chaos: An Interdisciplinary Journal of Nonlinear Science, 26 (2016), 023111.
[15].        Yuanjie Zheng*, Benzheng Wei, Hui Liu, Rui Xiao, and James C Gee, 'Measuring Sparse Temporal-Variation for Accurate Registration of Dynamic Contrast-Enhanced Breast Mr Images', Computerized Medical Imaging and Graphics, 46 (2015), 73-80.
[16].        Yuanjie Zheng, Brad M Keller, Shonket Ray, Yan Wang, Emily F Conant, James C Gee, and Despina Kontos*, 'Parenchymal Texture Analysis in Digital Mammography: A Fully Automated Pipeline for Breast Cancer Risk Assessment', Medical physics, 42 (2015), 4149-60.
[17].        Shuangling Wang, Yilong Yin*, Guibao Cao, Benzheng Wei, Yuanjie Zheng, and Gongping Yang, 'Hierarchical Retinal Blood Vessel Segmentation Based on Feature and Ensemble Learning', Neurocomputing, 149 (2015), 708-17.
[18].        Brad M Keller, Andrew Oustimov, Yan Wang, Jinbo Chen*, Raymond J Acciavatti, Yuanjie Zheng, Shonket Ray, James C Gee, Andrew DA Maidment, and Despina Kontos, 'Parenchymal Texture Analysis in Digital Mammography: Robust Texture Feature Identification and Equivalence across Devices', Journal of Medical Imaging, 2 (2015), 024501-01.
[19].        Yuanjie Zheng*, Ebenezer Daniel, Allan A Hunter, Rui Xiao, Jianbin Gao, Hongsheng Li, Maureen G Maguire, David H Brainard, and James C Gee, 'Landmark Matching Based Retinal Image Alignment by Enforcing Sparsity in Correspondence Matrix', Medical Image Analysis, 18 (2014), 903-13.
[20].        Hui Liu*, Ying Shao, Dongmei Guo, Yuanjie Zheng, Zuowei Zhao, and Tianshuang Qiu, 'Cirrhosis Classification Based on Texture Classification of Random Features', Computational and mathematical methods in medicine, 2014 (2014), 1-8.
[21].        Hongsheng Li*, Yuanjie Zheng, Shaoting Zhang, and Jian Cheng, 'Solving a Special Type of Jigsaw Puzzles: Banknote Reconstruction from a Large Number of Fragments', IEEE Transactions on Multimedia, 16 (2014), 571-78.
[22].        Jinyu Cong, Benzheng Wei*, Yilong Yin, Xiaoming Xi, and Yuanjie Zheng, 'Performance Evaluation of Simple Linear Iterative Clustering Algorithm on Medical Image Processing', Bio-medical materials and engineering, 24 (2014), 3231-38.
[23].        Rong Chen*, Zhongqiu Wang, and Yuanjie Zheng, 'Advanced Medical Image Analysis', Computational and Mathematical Methods in Medicine, 2014 (2014), 1-1.
[24].        Allan A Azarion*, Jue Wu, Kathryn A Davis, Allison Pearce, Veena T Krish, Joost Wagenaar, Weixuan Chen, Yuanjie Zheng, Hongzhi Wang, and Timothy H Lucas, 'An Open‐Source Automated Platform for Three‐Dimensional Visualization of Subdural Electrodes Using Ct‐Mri Coregistration', Epilepsia, 55 (2014), 2028-37.
[25].        Yuanjie Zheng*, Stephen Lin, Sing Bing Kang, Rui Xiao, James C Gee, and Chandra Kambhamettu, 'Single-Image Vignetting Correction from Gradient Distribution Symmetries', IEEE Transactions on Pattern Analysis and Machine Intelligence, 35 (2013), 1480-94.
[26].        Brad M Keller*, Diane L Nathan, Yan Wang, Yuanjie Zheng, James C Gee, Emily F Conant, and Despina Kontos, 'Estimation of Breast Percent Density in Raw and Processed Full Field Digital Mammography Images Via Adaptive Fuzzy C-Means Clustering and Support Vector Machine Segmentation', Medical physics, 39 (2012), 4903-17.
[27].        Nicholas J Tustison*, Brian B Avants, Philip A Cook, Yuanjie Zheng, Alexander Egan, Paul A Yushkevich, and James C Gee, 'N4itk: Improved N3 Bias Correction', IEEE Transactions on Medical Imaging, 29 (2010), 1310-20.
[28].        Yuanjie Zheng*, Stephen Lin, Chandra Kambhamettu, Jingyi Yu, and Sing Bing Kang, 'Single-Image Vignetting Correction', IEEE Transactions on Pattern Analysis and Machine Intelligence, 31 (2009), 2243-56.
[29].        Yuanjie Zheng, Sarah Englander, Sajjad Baloch, Evangelia I Zacharaki, Yong Fan, Mitchell D Schnall, and Dinggang Shen*, 'Step: Spatiotemporal Enhancement Pattern for Mr-Based Breast Tumor Diagnosis', Medical Physics, 36 (2009), 3192-204.
[30].        Hui Qiao, Hualei Zhang, Yuanjie Zheng, Datta E Ponde, Dinggang Shen, Fabao Gao, Ashley B Bakken, Alexander Schmitz, Hank F Kung, Victor A Ferrari, and Rong Zhou*, 'Embryonic Stem Cell Grafting in Normal and Infarcted Myocardium: Serial Assessment with Mr Imaging and Pet Dual Detection', Radiology, 250 (2009), 821-29.
[31].        Yuanjie Zheng*, Jie Yang, Yue Zhou, and Yuzhong Wang, 'Color-Texture Based Unsupervised Segmentation Using Jseg with Fuzzy Connectedness', Journal of Systems Engineering and Electronics, 17 (2006), 213-19.
[32].        Yuanjie Zheng, Jie Yang*, and Yue Zhou, 'Template Guided Live Wire and Its Application on Automatic Extraction of Tongue in Digital Image', Chinese Journal of Biomedical Engineering, 14 (2005), 58-68.
[33].        Yuanjie Zheng, Jie Yang*, and Yue Zhou, 'Unsupervised Image Segmentation Based on Fuzzy Connectedness with Sale Space Theory', International Journal of Applied Mathematics and Computer Sciences, 2 (2005), 25-30.
[34].        Yuanjie Zheng, Stephen Lin, and Jie Yang*, 'Color Filter Array Demosaicking with Local Color Distribution Linearity', Optical Engineering, 44 (2005), 0505011-12.
[35].        Yuzhong Wang*, Jie Yang, Yue Zhou, and Yuanjie Zheng, 'Image Segmentation in Tongue Characterization', Journal of Biomedical Engineering, 22 (2005), 1128-33.
[36].        Yuanjie Zheng, and Jie Yang*, 'Application of Binocular Vision System Based Onone Camera in Computer Vision', Infrared and Laser Engineering, 33 (2004), 392-96.
[37].        Yuzhong Wang, Jie Yang*, Dake Zhou, and Yuanjie Zheng, 'A Novel Approach for Unsupervised Segmentation of Homogeneous Regions in Gray-Scale Images', Journal of Donghua University, 21 (2004), 123-29.
[38].        Chaohui Lü, Xiaoguang Chen, Yuanjie Zheng, Wenfu Wu, and Hongxia Zhao*, 'Application of Three Dimensional Vision Technique in Measuring Seedling Perpendicularity', Transactions of The Chinese Society of Agricultural Engineering, 17 (2001), 127-30.
 

Peer-Reviewed Conference Papers

[1].        Haoliang Sun, Xiantong Zhen, Yuanjie Zheng, Gongping Yang, Yilong Yin, and Shuo Li. “Learning Deep Match Kernels for Image-Set Classification.” Proceedings of the IEEE conference on computer vision and pattern recognition. Hawaii, USA, 2017.
[2].        Wanzhen Jiao, Yuanjie Zheng, James Gee and Bojun Zhao. Aligning Automatically Sequential Spectral Slices from Multispectral Imaging (MSI) of Retina. ARVO 2017
[3].        Ilaria  Macchi, Vatinee Bunya, Mina  Massaro-Giordano, Yuanjie Zheng, Min Chen, Maureen Maguire, Richard Stone,  Eli Smith,  Jim Gee, Ebenezer Daniel.A New Scale (Penn Scale) for Measuring Bulbar Conjunctival Redness from Digital Photographs. ARVO 2017
[4].        Yufan He, Yankui Sun, Min Chen, Yuanjie Zheng, Hui Liu, Cecilia Leon, William Beltran, and James C. Gee, ' Automatic Segmentation of Canine Retinal Oct Using Adaptive Gradient Enhancement and Region Growing', in SPIE Medical Imaging 2016,San Diego, CA , United States (2016).
[5].        Yuanjie Zheng, Parikh Purak, Brian Vanderbeek, and James Gee, ''Automated Quantification of Morphologic Features and Vasculature of Choroid on Enhanced Depth Imaging Optical Coherence Tomography (EDI-OCT)', in ARVO, Seattle, WA, United States (2016).
[6].        Menglin Jiang, Shaoting Zhang, Yuanjie Zheng, and Dimitris Metaxas, 'Mammographic Mass Segmentation with Online Learned Shape and Appearance Priors', in The 19th Annual International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) (2016).
[7].        S. Li, H. Liu, D. Guo, Y. Zheng, J. C. Gee, and Z. Zhao, “Constraint Split Bregman method combined with total variation for structural decomposition of breast DCE-MRI,” in Computer Science and Network Technology (ICCSNT), 2015 4th International Conference on, 2015, vol. 1, pp. 1306–1310.
[8].        Predrag R Bakic, David D Pokrajac, Mathew Thomas, Angeliki Skoura, Tatyana Nuzhnaya, Vasileios Megalooikonomou, Brad Keller, Yuanjie Zheng, Despina Kontos, and James C Gee, 'Correlation between Topological Descriptors of the Breast Ductal Network from Clinical Galactograms and Texture Features of Corresponding Mammograms', in Breast Imaging (Springer, 2014), pp. 658-65.
[9].        Yuanjie Zheng, Rui Xiao, Yan Wang, and James C Gee, 'A Generative Model for Oct Retinal Layer Segmentation by Integrating Graph-Based Multi-Surface Searching and Image Registration', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2013 (Springer, 2013), pp. 428-35.
[10].        Yuanjie Zheng, Yan Wang, Brad M Keller, Emily Conant, James C Gee, and Despina Kontos, 'A Fully-Automated Software Pipeline for Integrating Breast Density and Parenchymal Texture Analysis for Digital Mammograms: Parameter Optimization in a Case-Control Breast Cancer Risk Assessment Study', in SPIE Medical Imaging (International Society for Optics and Photonics, 2013), pp. 86701B1-01B7.
[11].        Yuanjie Zheng, Brian Vanderbeek, Ebenezer Daniel, Dwight Stambolian, Maureen Maguire, David Brainard, and James Gee, 'An Automated Drusen Detection System for Classifying Age-Related Macular Degeneration with Color Fundus Photographs', in IEEE International Symposium on Biomedical Imaging (San Francisco, CA: IEEE, 2013), pp. 1448-51.
[12].        Yuanjie Zheng, Dwight Stambolian, Joan O’Brien, and James C Gee, 'Optic Disc and Cup Segmentation from Color Fundus Photograph Using Graph Cut with Priors', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2013 (Springer, 2013), pp. 75-82.
[13].       Yuanjie Zheng, James Gee, Benjamin Backus, and Kathryn Richdale, 'Automated Measurement of Lens Thickness Using Optical Coherence Tomography', in American Academy of Optometry (Seattle, CA: 2013).
[14].       Yan Wang, Brad M Keller, Yuanjie Zheng, Raymond J Acciavatti, James C Gee, Andrew DA Maidment, and Despina Kontos, 'Texture Feature Standardization in Digital Mammography for Improving Generalizability across Devices', in SPIE Medical Imaging (International Society for Optics and Photonics, 2013), pp. 8670261-67.
[15].       Predrag R Bakic, Brad Keller, Yuanjie Zheng, Yan Wang, James C Gee, Despina Kontos, and Andrew DA Maidment, 'Testing Realism of Software Breast Phantoms: Texture Analysis of Synthetic Mammograms', in SPIE Medical Imaging (International Society for Optics and Photonics, 2013), pp. 866824-24-12.
[16].       Yanjie Zhu, Yin Wu, Yuanjie Zheng, Ed X Wu, Leslie Ying, and Dong Liang, 'A Model-Based Method with Joint Sparsity Constraint for Direct Diffusion Tensor Estimation', in IEEE International Symposium on Biomedical Imaging (IEEE, 2012), pp. 510-13.
[17].       Yuanjie Zheng, Brian Vanderbeek, Rui Xiao, Ebenezer Daniel, Dwight Stambolian, Maureen Maguire, Joan O'Brien, and James Gee, 'Retrospective Illumination Correction of Retinal Fundus Images from Gradient Distribution Sparsity', in IEEE International Symposium on Biomedical Imaging (IEEE, 2012), pp. 972-75.
[18].       Jue Wu, Kathryn Davis, Allan Azarion, Yuanjie Zheng, Hongzhi Wang, Brian Litt, and James Gee, 'Brain Parcellation Aids in Electrode Localization in Epileptic Patients', in Augmented Environments for Computer-Assisted Interventions (Springer, 2012), pp. 130-37.
[19].       Yan Wang, Brad M Keller, Yuanjie Zheng, Raymond J Acciavatti, James C Gee, Andrew DA Maidment, and Despina Kontos, 'A Phantom Study for Assessing the Effect of Different Digital Detectors on Mammographic Texture Features', in Lecture Notes in Computer Science (Springer, 2012), pp. 604-10.
[20].       Yuanjie Zheng, Hongzhi Wang, Jue Wu, Jianbin Gao, and James C Gee, 'Multiscale Analysis Revisited: Detection of Drusen and Vessel in Digital Retinal Images', in IEEE International Symposium on Biomedical Imaging: From Nano to Macro (IEEE, 2011), pp. 689-92.
[21].       Yuanjie Zheng, Diane Nathan, Yan Wang, Brad Keller, Emily Conant, James Gee, and Despina Kontos, 'Pectoral Muscle Identification in Mammograms with a Layout Consistent Markov Random Field', in MICCAI 2011 Workshop on Breast Image Analysis (Toronto, Canada: 2011), pp. 1-8.
[22].       Yuanjie Zheng, Brad Keller, Yan Wang, Nicholas Tustison, Gang Song, Pedrag Bakic, Andrew Maidment, Emily Conant, James Gee, and Despina Kontos, 'A Fully-Automated Software Pipeline for Parenchymal Pattern Analysis in Digital Breast Images', in RSNA (Radiological Society of North America) Annual Meeting and Scientic Assembly: Showcase on the Quantitative Imaging Reading Room (Chicago, IL: 2011).
[23].       Yuanjie Zheng, Allan A Hunter III, Jue Wu, Hongzhi Wang, Jianbin Gao, Maureen G Maguire, and James C Gee, 'Landmark Matching Based Automatic Retinal Image Registration with Linear Programming and Self-Similarities', in Information Processing in Medical Imaging (Springer, 2011), pp. 674-85.
[24].       Brad Keller, Diane Nathan, Yan Wang, Yuanjie Zheng, James Gee, Emily Conant, and Despina Kontos, 'Adaptive Multi-Cluster Fuzzy C-Means Segmentation of Breast Parenchymal Tissue in Digital Mammography', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2011 (Springer, 2011), pp. 562-69.
[25].       Yuanjie Zheng, Andrew DA Maidment, and James C Gee, 'Accurate Registration of Dynamic Contrast-Enhanced Breast Mr Images with Robust Estimation and Linear Programming', in IEEE International Symposium on Biomedical Imaging: From Nano to Macro (IEEE, 2010), pp. 536-39.
[26].       Yuanjie Zheng, and James C Gee, 'Estimation of Image Bias Field with Sparsity Constraints', in IEEE Conference on Computer Vision and Pattern Recognition (San Francisco, CA: IEEE, 2010), pp. 255-62.
[27].       Brian Avants, Philip A Cook, Corey McMillan, Murray Grossman, Nicholas J Tustison, Yuanjie Zheng, and James C Gee, 'Sparse Unbiased Analysis of Anatomical Variance in Longitudinal Imaging', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2010 (Springer, 2010), pp. 324-31.
[28].       Yuanjie Zheng, Chandra Kambhamettu, and Stephen Lin, 'Single-Image Optical Center Estimation from Vignetting and Tangential Gradient Symmetry', in IEEE Conference on Computer Vision and Pattern Recognition (IEEE, 2009), pp. 2058-65.
[29].       Yuanjie Zheng, Chandra Kambhamettu, Thomas Bauer, and Karl Steiner, 'Accurate Estimation of Pulmonary Nodule's Growth Rate in Ct Images with Nonrigid Registration and Precise Nodule Detection and Segmentation', in IEEE Conference on Computer Vision and Pattern Recognition Workshops (IEEE, 2009), pp. 101-08.
[30].       Yuanjie Zheng, and Chandra Kambhamettu, 'Learning Based Digital Matting', in International Conference on Computer Vision (Kyoto, Japan: IEEE, 2009), pp. 889-96.
[31].       Yuanjie Zheng, Murray Grossman, Suyash P Awate, and James C Gee, 'Automatic Correction of Intensity Nonuniformity from Sparseness of Gradient Distribution in Medical Images', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2009 (Springer, 2009), pp. 852-59.
[32].       Yuanjie Zheng, Jingyi Yu, Sing Bing Kang, Stephen Lin, and Chandra Kambhamettu, 'Single-Image Vignetting Correction Using Radial Gradient Symmetry', in IEEE Conference on Computer Vision and Pattern Recognition (Anchorage, Alaska, USA: IEEE, 2008), pp. 1-8.
[33].       Yuanjie Zheng, Chandra Kambhamettu, Jingyi Yu, Thomas Bauer, and Karl Steiner, 'Fuzzymatte: A Computationally Efficient Scheme for Interactive Matting', in IEEE Conference on Computer Vision and Pattern Recognition (Anchorage, Alaska, USA: IEEE, 2008), pp. 1-8.
[34].       Yuanjie Zheng, Chandra Kambhamettu, Thomas Bauer, and Karl Steiner, 'Estimation of Ground-Glass Opacity Measurement in Ct Lung Images', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2008 (Springer, 2008), pp. 238-45.
[35].       Yuanjie Zheng, Jingyi Yu, Chandra Kambhamettu, Sarah Englander, Mitchell D Schnall, and Dinggang Shen, 'De-Enhancing the Dynamic Contrast-Enhanced Breast Mri for Robust Registration', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2007 (Springer, 2007), pp. 933-41.
[36].       Yuanjie Zheng, Karl Steiner, Thomas Bauer, Jingyi Yu, Dinggang Shen, and Chandra Kambhamettu, 'Lung Nodule Growth Analysis from 3d Ct Data with a Coupled Segmentation and Registration Framework', in International Conference on Computer Vision (Rio de Janeiro, Brazil: IEEE, 2007), pp. 1-8.
[37].       Yuanjie Zheng, Sarah Englander, Mitchell D. Schnall, and Dinggang Shen, 'Step: Spatial-Temporal Enhancement Pattern, for Mr-Based Breast Tumor Diagnosis', in IEEE International Symposium on Biomedical Imaging (Washington, D.C.: IEEE, 2007).
[38].       Yuanjie Zheng, Sajjad Baloch, Sarah Englander, Mitchell D Schnall, and Dinggang Shen, 'Segmentation and Classification of Breast Tumor Using Dynamic Contrast-Enhanced Mr Images', in Medical Image Computing and Computer-Assisted Intervention–Miccai 2007 (Springer, 2007), pp. 393-401.
[39].       Yuanjie Zheng, Stephen Lin, and Sing Bing Kang, 'Single-Image Vignetting Correction', in IEEE Conference on Computer Vision and Pattern Recognition (New York, NY, USA: IEEE, 2006), pp. 461-68