Department of Psychiatry and Computer Science
University of North Carolina at Chapel Hill
Journal Publications
2024
Cai, H., Deng, R., Yang, D., Zhang, F., Wu, G., Chen, J., Harmonic Wavelet Neural Network for Discovering Neuropathological Propagation Patterns in Alzheimer's Disease, IEEE journal of Biomedical and Health Informatics, 2024.
Dan, T., Dere, M., Kim, M., Kim, W., Wu, G., TauFlowNet: Revealing Latent Propagation Mechanism of Tau Aggregates Using Deep Neural Transport Equations, Medical Image Analysis, 2024.
Ma, H., Shi, Z., Kim M., Liu B., Smith, P., Liu, Y., Wu, G., Disentangling Sex-dependent Effect of APOE on Diverse Trajectory of Cognitive Decline in Alzheimer's Disease, vol. 292, Neuroimage (2024)
2023
Chen, J., Li, T., Zhao, B., Chen, H., Yuan, C., Garden, G., Wu, G., Zhu, H., The Interaction Effects of Age, APOE, and Common Environmental Risk Factors on Human Brain Structure, Cerebral Cortex (2023).
Dan, T., Kim, M., Kim, W. H., Wu, G. Developing Explainable Deep Model for Discovering Novel Control Mechanism of Neuro-Dynamics. IEEE transactions on medical imaging Pp, doi:10.1109/tmi.2023.3309821 (2023).
Yu, Z., Shi, Z, Dere, M, Li, Q, Wu, G. Uncovering Diverse Mechanistic Spreading Pathways in Disease Progression of Alzheimer's Disease. Journal of Alzheimer's disease reports 7, 855-872, doi:10.3233/adr-230081 (2023).
Cai, H. Sheng, X., Wu, G., Hu, B., Cheung, Y., Chen, J. Brain Network Classification for Accurate Detection of Alzheimer's Disease via Manifold Harmonic Discriminant Analysis. IEEE transactions on neural networks and learning systems Pp, doi:10.1109/tnnls.2023.3301456 (2023).
Xu, E., Zhang J, Song, Q, Yang, D, Wu, G, Chen, M. Pathology steered stratification network for subtype identification in Alzheimer's disease. Medical Physics n/a, doi:https://doi.org/10.1002/mp.16655 (2023).
Liu H, Cai H, Wu, G, Chen, J (2023) Learning Pyramidal Multi-Scale Harmonic Wavelets for Identifying the Neuropathology Propagation Patterns of Alzheimer's Disease, Medical Image Analysis.
Liu H, Cai H, Wu, G, Chen, J (2023) Estimating Outlier-Immunized Common Harmonic Waves for Brain Network Analyses on the Stiefel Manifold, IEEE Journal of Biomedical and Health Informatics.
Zhang J, Liu, Q, Zhang, H, Dai, M, Song, Q, Yang, D, Wu, G, Chen (2023), M, Uncovering the System Vulnerablity and Criticality of Human Brain Under Dynamical Neuropathological Events in Alzheimer’s Disease, Journal of Alzheimer’s Disease.
2022
Kyere F, Curtin I, Krupa O, McCormik, C, Dere M, Khan S, Kim M, Wang T, He Q, Wu G, Shih I, Sten, J (2022) Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy, Journal of Visual Experiments, DOI: 10.3791/64096
Dan T, Huang Z, Cai H, Laurienti P, Wu G, “Learning Brain Dynamics of Evolving Manifold Functional MRI Data Using Geometric-Attention Neural Network”, IEEE Transaction on Medical Imaging, 2022.
Dan T, Huang Z, Cai H, Lyday R, Laurienti P, Wu G, “Uncovering Shape Signatures of Resting-State Functional Connectivity by Geometric Deep Learning on Riemannian Manifold”, Human Brain Mapping, 2022.
Chen J, Cai H, Yang D, Styner M, Wu G, “Characterizing the Propagation of Neuropathological Events of Alzheimer’s Disease Using Harmonic Wavelet Analysis”, Medical Image Analysis, 2022.
Li W, Yang D, Yan C, Chen M, Li Q, Wu G, “Characterizing Network Selectiveness to the Dynamic Spreading of Neuropatholical Events in Alzheimer’s Disease”, Journal of Alzheimer’s Disease, 2022.
2021
Krupa O, Fragola G, Hadden-Ford E, Mory J, Liu T, Humphrey Z, Rees B, Krishnamurthy A, Snider W, Zylka M, Wu G, Xing L, Stein J, “NuMorph: Tools for cortical cellular phenotyping in tissue-cleared whole-brain images”, Cell Reports, 37(2), 2021.
Hu D, Liu C, Kai X, Abramowitz, A, Wu G, “Characterizing the Resilience Effect of Neurodegeneration for the Mechanistic Pathway of Alzheimer's Disease Journal of Alzheimer’s Disease”, Journal of Alzheimer’s Disease, 2021.
Hu R, Peng Z, Zhu X, Gan J, Zhu Y, Ma J, Wu G, “Multi-Band Brain Network Analysis for Functional Neuroimaging Biomarker Identification”, IEEE Transaction on Medical Imaging, 2021.
Yang D, Zhu X, Yan C, Peng Z, Bagonis M, Laurienti P, Styner M, Wu G, “Joint Hub Identification for Brain Networks by Multivariate Graph Inference”, Medical Image Analysis, 2021.
Yang D, Chen J, Yan C, Kim M, Laurienti P, Styner M. Wu G, “Group-wise Hub Identification by Learning Common Graph Embeddings on Grassmannian Manifold”, IEEE Transaction on Pattern Analysis and Machine Intelligence, 2021.
Borland D, McCormik C, Patel N, Krupa O, Mory J, Beltran A, Farah T, Escobar-Tomlienovich C, Olson S, Kim M, Wu G, Stein J, “Segmentor: A tool for manual refinement of 3D microscopy annotations”, Bioinformatics, 2021.
Gan J, Peng Z, Zhu X, Hu R, Ma J, Wu G, “Brain Functional Connectivity Analysis Based on Multi-Graph Fusion”, Medical Image Analysis, 71(7), 2021.
Lin Y, Hou J, Yang D, Kim M, Laurienti P, Wu G, “Learning Dynamic Graph Embeddings for Accurate Detection of Cognitive State Changes in Functional Brain Networks”, Neuroimage, 230(4), 2021.
Chen J, Han, G, Cai H, Yang D, Laurienti P, Styner M, Wu G, “Learning Common Harmonic Waves on Stiefel Manifold – A New Mathematical Approach for Brain Network Analysis”, IEEE Transaction on Medical Imaging, 40(1):419-430, 2021.
Guo Y, Krupa O, Stein J, Wu G, Krishnamuthy A, “SAU-Net: A Unified Network for Cell Counting in 2D and 3D Microscopy Images”, IEEE/ACM Transaction on Computational Biology and Bioinformatics, 2021.
Zhu Y, Zhu X, Kim M, Kaufer D, Wu G, “Long Range Early Diagnosis of Alzheimer’s Disease Using Longitudinal MR Imaging Data”, Medical Image Analysis, 67(1), 2021.
2020
Zhang Y, Hao Y, Xia K, and Wu G, A “Novel Computational Proxy for Characterizing Cognitive Reserve in Alzheimer's Disease”, Journal of Alzheimer’s Disease, 2020.
Kim M, Chen Y, Yang D, Kaufer D, Wu G, “Constructing Connectome Atlas by Graph Laplacian Learning”, Neuroinformatics, 2020.
2019
Dong P, Guo Y, Gao Y, Liang P, Shi Y, Wu G, “Multi-Atlas Segmentation of Brain Anatomical Structures Using Hierarchical Hypergraph Learning”, IEEE Transaction on Neural Networks and Learning System, 2019.
Mokhtari F, Akhlaghi M, Simpson S, Wu G, Laurienti P, “Sliding Window Correction Analysis: Modulating Window Shape for Dynamic Brain Connectivity in Resting State”, Neuroimage, 2019.
Jia Y, Wang Z, Yang T, Li Y, Gao S, Wu G, T Jiang, P Liang, “Entorhinal Cortex Atrophy in Early, Drug-naïve Parkinson’s Disease with Mild Cognitive Impairment”, Aging and Disease, accepted.
2018
Zhu Y, Zhu X, Kim M, Kaufer D, Wu G, “Dynamic Hyper-Graph Inference Framework for Computer Assisted Diagnosis of Neurodegenerative Diseases”, IEEE Transaction on Medical Imaging, 2018 August.
Tang, Y, , Zhu, C, “A First-order Splitting Method for Solving a Large-scale Composite Convex Optimization Problem”, Journal of Computational Mathematics, 2018, October.
Zhou, L, Rekik, I, Yan, C, Wu G, “Editorial: High Performance Computing in Bio-medical Informatics”, Neuroinformatics, 2018 July.
Zu C, Gao Y, Munsell B, Kim M, Peng Z, Cohen J, Zhang D, Wu G, “Identifying Disease-related Connectome Biomarkers by Sparse Hypergraph Learning”, Brain Imaging and Behavior, 2018 June.
Mokhtari F, Rejeski W.J., Zhu Y, Wu G, Simpson S, Burdette J, Laurienti P, “Dynamic fMRI Networks Predict Success in a Behavior Weight Loss Program among Older Adults”, Neuroimage, 2018
Adeli E, Thung K, An L, Wu G, Shi F, Wang T, and Shen D, “Semi-supervised Discriminative Classification Robust to Sample-Outliers and Feature-Noise”, IEEE Transaction on Pattern Recognition and Machine Intelligence, 2018.
Sanroma G, Benkarim O, Piella G, Camara O, Wu G, Shen D, Gispert J, Molinuevo J, and Ballester M, “Learning Non-linear Patch Embeddings with Neural Networks for Label Fusion”, Medical Image Analysis, 2018 Feb, 44(2):143-55.
2017
Wei L, Cao X, Wang Z, Gao Y, Hu S, Wang L, Wu G, and Shen D, “Learning-based Deformable Registration for Infant MRI by Integrating Random Forest with Auto-Context Model”, Medical Physics, 2017 October, 44(12): 6289-303.
Cao X, Yang J, Gao Y, Guo Y, Wu G, and Shen D, “Dual-core Steered Non-rigid Registration for Multi-modal Images via Bi-directional Image Synthesis”, Medical Image Analysis, 2017 October, 41(10): 18-31.
Wang Z, Zhu X, Adeli E, Zhu Y, Nie F, Munsell B, and Wu G, “Mutli-modal classification of neurodegenerative disease by progressive graph-based transductive learning”, Medical Image Analysis, 2017 July, 39(7): 218-30.
Adeli E, Wu G, Saghafi B, An L, Shi F, and Shen D, "Kernel-based Joint Feature Selection and Max-Margin Classification for Early Diagnosis of Parkinson’s Disease", Scientific Reports, 2017 Jan, 7:41069.
Hu S, Wei L, Gao Y, Guo Y, Wu G, Shen D, Learning-based Deformable Image Registration for Infant MR Images In the First Year of Life, Medial Physics, 2017 Jan, 44(1): 158-70.
Song Y, Wu G, Bahrami K, Sun Q, Shen D, Progressive Multi-Atlas Label Fusion by Dictionary Evolution, Medical Image Analysis, 2017 Feb, 36(2): 162-71.
Shen, D, Wu G, Suk H, Deep Learning in Medical Image Analysis, Annual Review of Biomedical Engineering, 2017 August, 19(8): 221-49.
Zu C, Wang Z, Zhang D, Liang P, Shi Y, Shen D, Wu G, Robust Multi-Atlas Label Propagation by Deep Sparse Representation, Pattern Recognition, 2017 Mar, 63(3):511-7.
Dong P, Wang L, Lin W, Shen D, Wu G, Scalable Joint Segmentation and Registration Framework for Infant Brain Images, Neurocomputing 2017 Mar, 229(3): 54-62.
2016
Zhang L, Wang Q, Gao Y, Li H, Wu G, Shen D, Concatenated Sparitally-localized Random Forests for Hippocampus Labeling in Adult and Infant MR Brain Images, Neurocomputing 2016 Mar, 229(3): 3-12.
Zhang Y, Shi F, Wu G, Wang L, Yap P, Shen D, Consistent Spatial-Temporal Longitudinal Atlas Construction for Developing Infant Brains, IEEE Tarns Medical Imaging, 2016 Dec, 35(12): 2568-77.
Adeli E, Shi F, An L, Wee C, Wu G, Wang T, Shen D, Joint Feature-Sample Selection and Robust Diagnosis of Parkinson’s Disease from MRI data, Neuroimage, 2016 Nov, 141:11, 206-19.
Zhang L, Wang Q, Gao Y, Wu G, Shen D. Automatic labeling of MR brain images by hierarchical learning of atlas forests. Med Phys. 2016 Mar; 43(3): 1175.
Zhang P, Wu G, Gao Y, Yap P, Shen D, A Dynamic Tree-based Registration Could Handle Possible Large Deformations among MR Brain Images. Compute Med Imaging Graph, 2016 Sep; 52:1-7.
Wu G, Peng X, Ying S, Wang Q, Yap PT, Shen D, Shen D. EHUGS: Enhanced hierarchical unbiased graph shrinkage for efficient groupwise registration. PLoS One. 2016 Jan 22; 11(1): e0146870.
Ma G, Gao Y, Wu G, Wu L, Shen D. Nonlocal atlas-guided multi-channel forest learning for human brain labeling. Med Phys. 2016 Feb; 43(2): 1003.
Wu G, Kim M, Wang Q, Munsell B, Shen D. Scalable High Performance Image Registration Framework by Unsupervised Deep Learning of Feature Representations. IEEE Trans Biomed Eng. 2016 July, 63(7): 1505-13.
2015
Du S, Guo Y, Sanroma G, Ni D, Wu G, Shen D. Building dynamic population graph for accurate correspondence detection. Med Image Anal. 2015 Dec; 26(1):256-67.
Han D, Gao Y, Wu G, Yap PT, Shen D. Robust anatomical landmark detection with application to MR brain image registration. Comput Med Imaging Graph. 2015 Dec; 46 Pt 3:277-90.
Sanroma G, Wu G, Gao Y, Thung KH, Guo Y, Shen D. A transversal approach for patch-based label fusion via matrix completion. Med Image Anal. 2015 Aug; 24(1):135-48.
Wu G, Kim M, Sanroma G, Wang Q, Munsell BC, Shen D; Alzheimer's Disease Neuroimaging Initiative. Hierarchical multi-atlas label fusion with multi-scale feature representation and label-specific patch partition. Neuroimage. 2015 Feb 1; 106: 34-46.
Shen D, Wu G, Zhang D, Suzuki K, Wang F, Yan P. Machine learning in medical imaging. Comput Med Imaging Graph. 2015 Apr; 41: 1-2.
Wu Y, Wu G, Wang L, Munsell BC, Wang Q, Lin W, Feng Q, Chen W, Shen D. Hierarchical and symmetric infant image registration by robust longitudinal-example-guided correspondence detection. Med Phys. 2015 Jul; 42(7): 4174-89.
Wang Q, Kim M, Shi Y, Wu G, Shen D; Alzheimer's Disease Neuroimaging Initiative. Predict brain MR image registration via sparse learning of appearance and transformation. Med Image Anal. 2015 Feb; 20(1): 61-75.
Kim M, Wu G, Wang Q, Lee SW, Shen D. Improved image registration by sparse patch-based deformation estimation. Neuroimage. 2015 Jan 15;105: 257-68.
2014
Wee CY, Zhao Z, Yap PT, Wu G, Shi F, Price T, Du Y, Xu J, Zhou Y, Shen D. Disrupted brain functional network in internet addiction disorder: a resting-state functional magnetic resonance imaging study. PLoS One. 2014 Sep 16; 9(9): e107306.
Sanroma G, Wu G, Gao Y, Shen D. Learning to rank atlases for multiple-atlas segmentation. IEEE Trans Med Imaging. 2014 Oct; 33(10): 1939-53.
Min R, Wu G, Cheng J, Wang Q, Shen D; Alzheimer's Disease Neuroimaging Initiative. Multi-atlas based representations for Alzheimer's disease diagnosis. Hum Brain Mapping. 2014 Oct; 35(10): 5052-70.
Shi F, Wang L, Wu G, Li G, Gilmore JH, Lin W, Shen D. Neonatal atlas construction using sparse representation. Hum Brain Mapping. 2014 Sep; 35(9): 4663-77.
Wu G, Wang Q, Zhang D, Nie F, Huang H, Shen D. A generative probability model of joint label fusion for multi-atlas based brain segmentation. Medical Image Analysis. 2014 Aug; 18(6): 881-90.
Bhavsar A, Wu G, Lian J, Shen D. Resolution enhancement of lung 4D-CT via group-sparsity. Med Phys. 2013 Dec; 40(12): 121717.
Wang Q, Yap PT, Wu G, Shen D. Diffusion tensor image registration using hybrid connectivity and tensor features. Hum Brain Mapping. 2014 Jul; 35(7): 3529-46.
Ying S, Wu G, Wang Q, Shen D. Hierarchical unbiased graph shrinkage (HUGS): a novel groupwise registration for large data set. Neuroimage. 2014 Jan 1; 84: 626-38.
Wu G, Kim M, Wang Q, Shen D. S-HAMMER: hierarchical attribute-guided, symmetric diffeomorphic registration for MR brain images. Hum Brain Mapping. 2014 Mar; 35(3): 1044-60.
2013
Kim M, Wu G, Li W, Wang L, Son YD, Cho ZH, Shen D. Automatic hippocampus segmentation of 7.0 Tesla MR images by combining multiple atlases and auto-context models. Neuroimage. 2013 Dec; 83: 335-45.
Dai Y, Wang Y, Wang L, Wu G, Shi F, Shen D; Alzheimer’s Disease Neuroimaging Initiative. aBEAT: a toolbox for consistent analysis of longitudinal adult brain MRI. PLoS One. 2013; 8(4): e60344.
Wu G, Wang Q, Lian J, Shen D. Estimating the 4D respiratory lung motion by spatiotemporal registration and super-resolution image reconstruction. Med Phys. 2013 Mar; 40(3): 031710.
Wang Q, Yap PT, Wu G, Shen D. Application of neuroanatomical features to tractography clustering. Hum Brain Mapping. 2013 Sep; 34(9): 2089-102.
Guo Y, Wu G, Jiang J, Shen D. Robust anatomical correspondence detection by hierarchical sparse graph matching. IEEE Trans Med Imaging. 2013 Feb; 32(2): 268-77.
Zhang Y, Yap PT, Wu G, Feng Q, Lian J, Chen W, Shen D. Resolution enhancement of lung 4D-CT data using multiscale interphase iterative nonlocal means. Med Phys. 2013 May; 40(5): 051916. .
Wang Q, Yap PT, Wu G, Shen D. Application of neuroanatomical features to tractography clustering. Hum Brain Mapping. 2013 Sep; 34(9): 2089-102.
Dai Y, Shi F, Wang L, Wu G, Shen D. iBEAT: A toolbox for infant brain magnetic resonance image processing. Neuroinformatics. 2013 Apr; 11(2): 211-25.
2012
Liao S, Wu G, Shen D. A statistical framework for inter-group image registration. Neuroinformatics. 2012 Oct; 10(4): 367-78.
Zhang Y, Wu G, Yap PT, Feng Q, Lian J, Chen W, Shen D. Hierarchical patch-based sparse representation--a new approach for resolution enhancement of 4D-CT lung data. IEEE Trans Med Imaging. 2012 Nov; 31(11): 1993-2005.
Wu G, Lian J, Shen D. Improving image-guided radiation therapy of lung cancer by reconstructing 4D-CT from a single free-breathing 3D-CT on the treatment day. Med Phys. 2012 Dec; 39(12): 7694-709.
Kim M, Wu G, Shen D. Hierarchical alignment of breast DCE-MR images by groupwise registration and robust feature matching. Med Phys. 2012 Jan; 39(1): 353-66.
Jia H, Wu G, Wang Q, Wang Y, Kim M, Shen D. Directed graph based image registration. Comput Med Imaging Graph. 2012 Mar; 36(2): 139-51.
Li G, Nie J, Wu G, Wang Y, Shen D; Alzheimer's Disease Neuroimaging Initiative. Consistent reconstruction of cortical surfaces from longitudinal brain MR images. Neuroimage. 2012 Feb 15; 59(4): 3805-20.
Liao S, Jia H, Wu G, Shen D; Alzheimer's Disease Neuroimaging Initiative. A novel framework for longitudinal atlas construction with groupwise registration of subject image sequences. Neuroimage. 2012 Jan 16; 59(2): 1275-89.
Wu G, Wang Q, Shen D; Alzheimer's Disease NeuroImaging Initiative. Registration of longitudinal brain image sequences with implicit template and spatial-temporal heuristics. Neuroimage. 2012 Jan 2; 59(1): 404-21.
Kim M, Wu G, Yap PT, Shen D. A general fast registration framework by learning deformation-appearance correlation. IEEE Trans Image Process. 2012 Apr; 21(4): 1823-33.
Wu G, Wang Q, Jia H, Shen D. Feature-based groupwise registration by hierarchical anatomical correspondence detection. Hum Brain Mapping. 2012 Feb; 33(2): 253-71.
Li Y, Wang Y, Wu G, Shi F, Zhou L, Lin W, Shen D; Alzheimer's Disease Neuroimaging Initiative. Discriminant analysis of longitudinal cortical thickness changes in Alzheimer's disease using dynamic and network features. Neurobiol Aging. 2012 Feb; 33(2): 427.e15-30.
2011
Wu G, Jia H, Wang Q, Shen D. SharpMean: groupwise registration guided by sharp mean image and tree-based registration. Neuroimage. 2011 Jun 15; 56(4): 1968-81.
Shi F, Yap PT, Wu G, Jia H, Gilmore JH, Lin W, Shen D. Infant brain atlases from neonates to 1- and 2-year-olds. PLoS One. 2011 Apr 14; 6(4): e18746.
Jia H, Yap PT, Wu G, Wang Q, Shen D. Intermediate templates guided groupwise registration of diffusion tensor images. Neuroimage. 2011 Jan 15; 54(2): 928-39.
2010
Yap PT, Wu G, Shen D. Human Brain Connectomics: Networks, Techniques, and Applications. July 2010; 27(4): 131-134.
Jia H, Wu G, Wang Q, Shen D. ABSORB: Atlas Building by Self-organized Registration and Bundling. Neuroimage. 2010 Jul 1; 51(3): 1057-70.
Wang Q, Wu G, Yap PT, Shen D. Attribute vector guided groupwise registration. Neuroimage. 2010 May 1; 50(4): 1485-96.
Yap PT, Wu G, Zhu H, Lin W, Shen D. F-TIMER: fast tensor image morphing for elastic registration. IEEE Trans Med Imaging. 2010 May; 29(5): 1192-203.
Wu G, Yap PT, Kim M, Shen D. TPS-HAMMER: improving HAMMER registration algorithm by soft correspondence matching and thin-plate splines based deformation interpolation. Neuroimage. 2010 Feb 1; 49(3): 2225-33.
Wang Q, Chen L, Yap PT, Wu G, Shen D. Groupwise registration based on hierarchical image clustering and atlas synthesis. Hum Brain Mapping. 2010 Aug; 31(8): 1128-40.
2009
Yap PT, Wu G, Zhu H, Lin W, Shen D. TIMER: tensor image morphing for elastic registration. Neuroimage. 2009 Aug 15; 47(2): 549-63.
Tang S, Fan Y, Wu G, Kim M, Shen D. RABBIT: rapid alignment of brains by building intermediate templates. Neuroimage. 2009 Oct 1; 47(4): 1277-87.
2006
Wu G, Qi F, Shen D. Learning-based deformable registration of MR brain images. IEEE Trans Med Imaging. 2006 Sep; 25(9): 1145-57.