Difference between revisions of "Shuo"
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'''Johns Hopkins University, Baltimore, MD''' ''2016–present'' | '''Johns Hopkins University, Baltimore, MD''' ''2016–present'' | ||
| − | Doctor of Philosophy in Biomedical Engineering | + | * Doctor of Philosophy in Biomedical Engineering |
'''Johns Hopkins University, Baltimore, MD''' ''2014–2016'' | '''Johns Hopkins University, Baltimore, MD''' ''2014–2016'' | ||
| − | Master’s of Science and Engineering in Biomedical Engineering | + | * Master’s of Science and Engineering in Biomedical Engineering |
'''Tsinghua University, Beijing, China''' ''2010–2014'' | '''Tsinghua University, Beijing, China''' ''2010–2014'' | ||
| − | Bachelor of Engineering in Biomedical Engineering | + | * Bachelor of Engineering in Biomedical Engineering |
| − | Minor in Computer Science & Technology | + | * Minor in Computer Science & Technology |
==Research== | ==Research== | ||
| Line 24: | Line 24: | ||
{{h5 | Image Analysis and Communications Laboratory, Johns Hopkins University, Baltimore, MD}} | {{h5 | Image Analysis and Communications Laboratory, Johns Hopkins University, Baltimore, MD}} | ||
| − | '''Cerebellar Parcellation and Analysis''' ''2016–present'' | + | * '''Cerebellar Parcellation and Analysis''' ''2016–present'' |
{{h5 | Laboratory of Behavioral Neuroscience, NIA, NIH, Baltimore, MD}} | {{h5 | Laboratory of Behavioral Neuroscience, NIA, NIH, Baltimore, MD}} | ||
| − | '''Longitudinal Analysis of the Cerebellum''' ''2016–2019'' | + | * '''Longitudinal Analysis of the Cerebellum''' ''2016–2019'' |
{{h5 | Dynamic Imaging Laboratory, Johns Hopkins University School of Medicine, Baltimore, MD}} | {{h5 | Dynamic Imaging Laboratory, Johns Hopkins University School of Medicine, Baltimore, MD}} | ||
| − | '''Cardiac MRI Heartbeat-Type Triggering System During Arrhythmia''' ''2015–2016'' | + | * '''Cardiac MRI Heartbeat-Type Triggering System During Arrhythmia''' ''2015–2016'' |
| − | '''Polyhedral Phantom Framework with Analytical Fourier Transform''' ''2014–2016'' | + | * '''Polyhedral Phantom Framework with Analytical Fourier Transform''' ''2014–2016'' |
{{h5 | Tsinghua University, Center for Biomedical Imaging Research, Beijing, China}} | {{h5 | Tsinghua University, Center for Biomedical Imaging Research, Beijing, China}} | ||
| − | '''Unsupervised Machine Learning Based Motion Compensation in MRI''' ''2013–2014'' | + | * '''Unsupervised Machine Learning Based Motion Compensation in MRI''' ''2013–2014'' |
==Code and Packages== | ==Code and Packages== | ||
| Line 44: | Line 44: | ||
{{h5 | Some documented publicly available packages}} | {{h5 | Some documented publicly available packages}} | ||
| − | '''dataset''': Deep learning data augmentation and operations. https://gitlab.com/shan-deep-networks/dataset | + | * '''dataset''': Deep learning data augmentation and operations. https://gitlab.com/shan-deep-networks/dataset |
| − | '''image-processing-3d''': 3D image transformation and operations. https://gitlab.com/shan-utils/image-processing-3d | + | * '''image-processing-3d''': 3D image transformation and operations. https://gitlab.com/shan-utils/image-processing-3d |
| − | '''label-image-cleanup''': A simple label image cleanup based on connected components. https://gitlab.com/shan-utils/label-image-cleanup | + | * '''label-image-cleanup''': A simple label image cleanup based on connected components. https://gitlab.com/shan-utils/label-image-cleanup |
{{h5 | Singularity container images}} | {{h5 | Singularity container images}} | ||
| Line 60: | Line 60: | ||
==Publications== | ==Publications== | ||
| − | '''Shuo Han''', Aaron Carass, and Jerry L. Prince. "Hierarchical parcellation of the cerebellum." MICCAI, 2019. | + | * '''Shuo Han''', Aaron Carass, and Jerry L. Prince. "Hierarchical parcellation of the cerebellum." MICCAI, 2019. |
| − | + | * '''Shuo Han''', Yufan He, Aaron Carass, Sarah H. Ying, and Jerry L. Prince. "Cerebellum parcellation with convolutional neural networks." SPIE, 2019. | |
| − | '''Shuo Han''' | + | * '''Shuo Han''', and Daniel A. Herzka. "Software Framework for Realistic MRI Simulations Using the Polyhedral Fourier Transform." SASHIMI, 2016. |
| − | '''Shuo Han''', and | + | * Lianrui Zuo, '''Shuo Han''', Aaron Carass, Sarah H. Ying, Chiadikaobi U. Onyike, and Jerry L. Prince. "Automatic quality control using hierarchical shape analysis for cerebellum parcellation." SPIE, 2019. |
| − | + | * Muhan Shao, '''Shuo Han''', Aaron Carass, Xiang Li, Ari M. Blitz, Jaehoon Shin, Jerry L. Prince, and Lotta M. Ellingsen. "Brain ventricle parcellation using a deep neural network: Application to patients with ventriculomegaly." NeuroImage: Clinical, 2019 | |
| − | + | * Hao Li, Can Zhao, '''Shuo Han''', Aaron Carass, and Jerry L. Prince. "A resolution measurement algorithm for MRI." ISBI, 2019. | |
| − | Muhan Shao, '''Shuo Han''', Aaron Carass, Xiang Li, Ari M. Blitz, Jerry L. Prince, and Lotta M. Ellingsen. "Shortcomings of Ventricle Segmentation Using Deep Convolutional Networks." MICCAI workshop DLF (Deep Learning Fails), 2018. | + | * Muhan Shao, '''Shuo Han''', Aaron Carass, Xiang Li, Ari M. Blitz, Jerry L. Prince, and Lotta M. Ellingsen. "Shortcomings of Ventricle Segmentation Using Deep Convolutional Networks." MICCAI workshop DLF (Deep Learning Fails), 2018. |
| − | Aaron Carass, Jennifer L. Cuzzocreo, '''Shuo Han''', Carlos R. Hernandez-Castillo, Paul E. Rasser, Melanie Ganz, Vincent Beliveau, et al. "Comparing fully automated state-of-the-art cerebellum parcellation from magnetic resonance images." NeuroImage, 2018. | + | * Aaron Carass, Jennifer L. Cuzzocreo, '''Shuo Han''', Carlos R. Hernandez-Castillo, Paul E. Rasser, Melanie Ganz, Vincent Beliveau, et al. "Comparing fully automated state-of-the-art cerebellum parcellation from magnetic resonance images." NeuroImage, 2018. |
| − | Lianrui Zuo, Aaron Carass, '''Shuo Han''', and Jerry L. Prince. "Automatic outlier detection using hidden Markov model for cerebellar lobule segmentation." SPIE, 2018. | + | * Lianrui Zuo, Aaron Carass, '''Shuo Han''', and Jerry L. Prince. "Automatic outlier detection using hidden Markov model for cerebellar lobule segmentation." SPIE, 2018. |
| − | Tri M. Ngo, George S. K. Fung, '''Shuo Han''', Min Chen, Jerry L. Prince, Benjamin M. W. Tsui, Elliot R. McVeigh, and | + | * Tri M. Ngo, George S. K. Fung, '''Shuo Han''', Min Chen, Jerry L. Prince, Benjamin M. W. Tsui, Elliot R. McVeigh, and Daniel A. Herzka, “Realistic analytical polyhedral MRI phantoms.” Magnetic Resonance in Medicine, 2015. |
| − | Daniel A. Herzka, “Realistic analytical polyhedral MRI phantoms.” Magnetic Resonance in Medicine, 2015. | ||
| − | '''Shuo Han''' and Daniel A. Herzka, "PolyFT: a Freely-available optimized MATLAB implementation of the polyhedral | + | * '''Shuo Han''' and Daniel A. Herzka, "PolyFT: a Freely-available optimized MATLAB implementation of the polyhedral Fourier transform for analytical simulations in MRI." presented at ISMRM 24th Meeting, Singapore, 2016. |
| − | Fourier transform for analytical simulations in MRI." presented at ISMRM 24th Meeting, Singapore, 2016. | ||
| − | '''Shuo Han''' and Daniel A. Herzka, "Polyhedral phantom framework with analytical Fourier transform with intensity | + | * '''Shuo Han''' and Daniel A. Herzka, "Polyhedral phantom framework with analytical Fourier transform with intensity gradients." presented at ISMRM 23rd Meeting, Toronto, Canada, 2015. |
| − | gradients." presented at ISMRM 23rd Meeting, Toronto, Canada, 2015. | ||
Revision as of 15:17, 5 November 2019
Contents
- 1 Education
- 2 Research
- 2.1 Image Analysis and Communications Laboratory, Johns Hopkins University, Baltimore, MD
- 2.2 Laboratory of Behavioral Neuroscience, NIA, NIH, Baltimore, MD
- 2.3 Dynamic Imaging Laboratory, Johns Hopkins University School of Medicine, Baltimore, MD
- 2.4 Tsinghua University, Center for Biomedical Imaging Research, Beijing, China
- 3 Code and Packages
- 4 Activities
- 5 Publications
Education
Johns Hopkins University, Baltimore, MD 2016–present
- Doctor of Philosophy in Biomedical Engineering
Johns Hopkins University, Baltimore, MD 2014–2016
- Master’s of Science and Engineering in Biomedical Engineering
Tsinghua University, Beijing, China 2010–2014
- Bachelor of Engineering in Biomedical Engineering
- Minor in Computer Science & Technology
Research
Image Analysis and Communications Laboratory, Johns Hopkins University, Baltimore, MD
- Cerebellar Parcellation and Analysis 2016–present
Laboratory of Behavioral Neuroscience, NIA, NIH, Baltimore, MD
- Longitudinal Analysis of the Cerebellum 2016–2019
Dynamic Imaging Laboratory, Johns Hopkins University School of Medicine, Baltimore, MD
- Cardiac MRI Heartbeat-Type Triggering System During Arrhythmia 2015–2016
- Polyhedral Phantom Framework with Analytical Fourier Transform 2014–2016
Tsinghua University, Center for Biomedical Imaging Research, Beijing, China
- Unsupervised Machine Learning Based Motion Compensation in MRI 2013–2014
Code and Packages
Some documented publicly available packages
- dataset: Deep learning data augmentation and operations. https://gitlab.com/shan-deep-networks/dataset
- image-processing-3d: 3D image transformation and operations. https://gitlab.com/shan-utils/image-processing-3d
- label-image-cleanup: A simple label image cleanup based on connected components. https://gitlab.com/shan-utils/label-image-cleanup
Singularity container images
Upcoming
Activities
CHAOS ISBI 2019 challenge the second place in Tasks 3 and 5.
Publications
- Shuo Han, Aaron Carass, and Jerry L. Prince. "Hierarchical parcellation of the cerebellum." MICCAI, 2019.
- Shuo Han, Yufan He, Aaron Carass, Sarah H. Ying, and Jerry L. Prince. "Cerebellum parcellation with convolutional neural networks." SPIE, 2019.
- Shuo Han, and Daniel A. Herzka. "Software Framework for Realistic MRI Simulations Using the Polyhedral Fourier Transform." SASHIMI, 2016.
- Lianrui Zuo, Shuo Han, Aaron Carass, Sarah H. Ying, Chiadikaobi U. Onyike, and Jerry L. Prince. "Automatic quality control using hierarchical shape analysis for cerebellum parcellation." SPIE, 2019.
- Muhan Shao, Shuo Han, Aaron Carass, Xiang Li, Ari M. Blitz, Jaehoon Shin, Jerry L. Prince, and Lotta M. Ellingsen. "Brain ventricle parcellation using a deep neural network: Application to patients with ventriculomegaly." NeuroImage: Clinical, 2019
- Hao Li, Can Zhao, Shuo Han, Aaron Carass, and Jerry L. Prince. "A resolution measurement algorithm for MRI." ISBI, 2019.
- Muhan Shao, Shuo Han, Aaron Carass, Xiang Li, Ari M. Blitz, Jerry L. Prince, and Lotta M. Ellingsen. "Shortcomings of Ventricle Segmentation Using Deep Convolutional Networks." MICCAI workshop DLF (Deep Learning Fails), 2018.
- Aaron Carass, Jennifer L. Cuzzocreo, Shuo Han, Carlos R. Hernandez-Castillo, Paul E. Rasser, Melanie Ganz, Vincent Beliveau, et al. "Comparing fully automated state-of-the-art cerebellum parcellation from magnetic resonance images." NeuroImage, 2018.
- Lianrui Zuo, Aaron Carass, Shuo Han, and Jerry L. Prince. "Automatic outlier detection using hidden Markov model for cerebellar lobule segmentation." SPIE, 2018.
- Tri M. Ngo, George S. K. Fung, Shuo Han, Min Chen, Jerry L. Prince, Benjamin M. W. Tsui, Elliot R. McVeigh, and Daniel A. Herzka, “Realistic analytical polyhedral MRI phantoms.” Magnetic Resonance in Medicine, 2015.
- Shuo Han and Daniel A. Herzka, "PolyFT: a Freely-available optimized MATLAB implementation of the polyhedral Fourier transform for analytical simulations in MRI." presented at ISMRM 24th Meeting, Singapore, 2016.
- Shuo Han and Daniel A. Herzka, "Polyhedral phantom framework with analytical Fourier transform with intensity gradients." presented at ISMRM 23rd Meeting, Toronto, Canada, 2015.
