Computational anatomy: computing metrics on anatomical shapes. - Mirza Faisal Beg; Michael I. Miller; Alain Trouvé; Laurent Younes (ISBI, 2002)

The Euler-Lagrange Equation for Interpolating Sequence of Landmark Datasets. - Mirza Faisal Beg; Michael I. Miller; Alain Trouvé; Laurent Younes (MICCAI (2), 2003)

Biomedical Informatics Research Network: Integrating Multi-Site Neuroimaging Data Acquisition, Data Sharing and Brain Morphometric Processing. - Jorge Jovicich; Mirza Faisal Beg; Steve Pieper 001; Carey E. Priebe; Michael I. Miller; Randy L. Buckner; Bruce R. Rosen (CBMS, 2005)

Semi-automated Basal Ganglia Segmentation Using Large Deformation Diffeomorphic Metric Mapping. - Ali R. Khan; Elizabeth H. Aylward; Patrick Barta; Michael I. Miller; Mirza Faisal Beg (MICCAI, 2005)

Computing the thickness of the ventricular heart wall from 3D MRI images. - Gregory Golds; Mirza Faisal Beg (Image Processing, 2005)

Computing Large Deformation Metric Mappings via Geodesic Flows of Diffeomorphisms. - Mirza Faisal Beg; Michael I. Miller; Alain Trouvé; Laurent Younes (Int. J. Comput. Vis., 2005)

Computing an average anatomical atlas using LDDMM and geodesic shooting. - Mirza Faisal Beg; Ali R. Khan (ISBI, 2006)

Consistent realignment of 3D diffusion tensor MRI eigenvectors. - Mirza Faisal Beg; Ryan Dickie; Gregory Golds; Laurent Younes (Image Processing, 2007)

Symmetric Data Attachment Terms for Large Deformation Image Registration. - Mirza Faisal Beg; Ali R. Khan (IEEE Trans. Medical Imaging, 2007)

Large Deformation Diffeomorphism and Momentum Based Hippocampal Shape Discrimination in Dementia of the Alzheimer type. - Lei Wang 032; Mirza Faisal Beg; J. Tilak Ratnanather; Can Ceritoglu; Laurent Younes; John C. Morris; John G. Csernansky; Michael I. Miller (IEEE Trans. Medical Imaging, 2007)

Two novel methods for computing the 3D cardiac midwall. - Ryan Dickie; Mirza Faisal Beg (ISBI, 2008)

Representation of time-varying shapes in the large deformation diffeomorphic framework. - Ali R. Khan; Mirza Faisal Beg (ISBI, 2008)

FreeSurfer-initiated fully-automated subcortical brain segmentation in MRI using Large Deformation Diffeomorphic Metric Mapping. - Ali R. Khan; Lei Wang 032; Mirza Faisal Beg (NeuroImage, 2008)

A Combined Surface And VOlumetric Registration (SAVOR) Framework to Study Cortical Biomarkers and Volumetric Imaging Data. - Eli Gibson; Ali R. Khan; Mirza Faisal Beg (MICCAI (1), 2009)

Robust Atlas-Based Brain Segmentation Using Multi-structure Confidence-Weighted Registration. - Ali R. Khan; Moo K. Chung; Mirza Faisal Beg (MICCAI (1), 2009)

Freesurfer-initialized large deformation diffeomorphic metric mapping with application to Parkinson's disease. - Jingyun Chen; Samantha J. Palmer; Ali R. Khan; Martin J. McKeown; Mirza Faisal Beg (Image Processing, 2009)

External landmark and head-shape-based functional data normalization. - Mirza Faisal Beg; Stephen Wong; Ali R. Khan; Teresa Cheung; Naznin Virji-Babul; Anthony T. Herdman (Comput. Medical Imaging Graph., 2009)

Optic Nerve Head Registration Via Hemispherical Surface and Volume Registration. - Eli Gibson; Mei Young; Marinko Sarunic; Mirza Faisal Beg (IEEE Trans. Biomed. Eng., 2010)

Hippocampal Surface Mapping of Genetic Risk Factors in AD via Sparse Learning Models. - Jing Wan; Sungeun Kim; Mark Inlow; Kwangsik Nho; Shanker Swaminathan; Shannon L. Risacher; Shiaofen Fang; Michael W. Weiner; Mirza Faisal Beg; Lei Wang 032; Andrew J. Saykin; Li Shen 001 (MICCAI (2), 2011)

Momentum-based morphometric analysis with application to Parkinson's disease. - Jingyun Chen; Ali R. Khan; Martin J. McKeown; Mirza Faisal Beg (Image-Guided Procedures, 2011)

Quantization and analysis of hippocampal morphometric changes due to dementia of Alzheimer type using metric distances based on large deformation diffeomorphic metric mapping. - Elvan Ceyhan; Mirza Faisal Beg; Can Ceritoglu; Lei Wang 032; John C. Morris; John G. Csernansky; Michael I. Miller; J. Tilak Ratnanather (Comput. Medical Imaging Graph., 2011)

Optimal weights for local multi-atlas fusion using supervised learning and dynamic information (SuperDyn): Validation on hippocampus segmentation. - Ali R. Khan; Nicolas Cherbuin; Wei Wen; Kaarin Anstey; Perminder S. Sachdev; Mirza Faisal Beg (NeuroImage, 2011)

Automated detection of amnestic mild cognitive impairment in community-dwelling elderly adults: A combined spatial atrophy and white matter alteration approach. - Yue Cui 003; Wei Wen; Darren M. Lipnicki; Mirza Faisal Beg; Jesse S. Jin; Suhuai Luo; Wanlin Zhu; Nicole A. Kochan; Simone Reppermund; Lin Zhuang; Pradeep Reddy Raamana; Tao Liu 067; et al. (NeuroImage, 2012)

On identification of sinoatrial node in zebrafish heart based on functional time series from optical mapping. - Gavin Weiguang Ding; Eric Lin; Amanda Ribeiro; Marinko V. Sarunic; Glen F. Tibbits; Mirza Faisal Beg (EMBC, 2013)

Automatic detection of subretinal fluid and sub-retinal pigment epithelium fluid in optical coherence tomography images. - Gavin Weiguang Ding; Mei Young; Serge Bourgault; Sieun Lee; David A. Albiani; Andrew W. Kirker; Farzin Forooghian; Marinko V. Sarunic; Andrew B. Merkur; Mirza Faisal Beg (EMBC, 2013)

Thickness NETwork (ThickNet) Features for the Detection of Prodromal AD. - Pradeep Reddy Raamana; Lei Wang 032; Mirza Faisal Beg (MLMI, 2013)

Multistructure Large Deformation Diffeomorphic Brain Registration. - Ali R. Khan; Lei Wang 032; Mirza Faisal Beg (IEEE Trans. Biomed. Eng., 2013)

Quantitative Evaluation of Transform Domains for Compressive Sampling-Based Recovery of Sparsely Sampled Volumetric OCT Images. - Andy Bo Wu; Evgeniy Lebed; Marinko Sarunic; Mirza Faisal Beg (IEEE Trans. Biomed. Eng., 2013)

Novel Surface-Smoothing Based Local Gyrification Index. - Evgeniy Lebed; Claudia Jacova; Lei Wang 032; Mirza Faisal Beg (IEEE Trans. Medical Imaging, 2013)

Automatic Cycle Averaging for Denoising Approximately Periodic Spatiotemporal Signals. - Gavin Weiguang Ding; Eric Lin; Amanda Ribeiro; Marinko V. Sarunic; Glen F. Tibbits; Mirza Faisal Beg (IEEE Trans. Medical Imaging, 2014)

Exact Surface Registration of Retinal Surfaces From 3-D Optical Coherence Tomography Images. - Sieun Lee; Evgeniy Lebed; Marinko V. Sarunic; Mirza Faisal Beg (IEEE Trans. Biomed. Eng., 2015)

Surface displacement based shape analysis of central brain structures in preterm-born children. - Amanmeet Garg; Ruth E. Grunau; Karteek Popuri; Steven P. Miller; Bruce Bjornson; Kenneth J. Poskitt; Mirza Faisal Beg (Biomedical Applications in Molecular, Structural, and Functional Imaging, 2016)

Brain geometry persistent homology marker for Parkinson's disease. - Amanmeet Garg; Donghuan Lu; Karteek Popuri; Mirza Faisal Beg (ISBI, 2017)

Multiple instance learning for age-related macular degeneration diagnosis in optical coherence tomography images. - Donghuan Lu; Gavin Weiguang Ding; Andrew B. Merkur; Marinko V. Sarunic; Mirza Faisal Beg (ISBI, 2017)

Topology of Surface Displacement Shape Feature in Subcortical Structures. - Amanmeet Garg; Donghuan Lu; Karteek Popuri; Mirza Faisal Beg (GRAIL/MFCA/MICGen@MICCAI, 2017)

Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using Fully Convolutional Neural Network. - Donghuan Lu; Morgan Heisler; Sieun Lee; Gavin Weiguang Ding; Marinko V. Sarunic; Mirza Faisal Beg (CoRR, 2017)

Multimodal and Multiscale Deep Neural Networks for the Early Diagnosis of Alzheimer's Disease using structural MR and FDG-PET images. - Donghuan Lu; Karteek Popuri; Gavin Weiguang Ding; Rakesh Balachandar; Mirza Faisal Beg (CoRR, 2017)

Development and validation of a novel dementia of Alzheimer's type (DAT) score based on metabolism FDG-PET imaging. - Karteek Popuri; Rakesh Balachandar; Kathryn I. Alpert; Donghuan Lu; Mahadev Bhalla; Ian Mackenzie; Robin Ging-Yuek Hsiung; Lei Wang 032; Mirza Faisal Beg (CoRR, 2017)

Atlas-based shape analysis and classification of retinal optical coherence tomography images using the functional shape (fshape) framework. - Sieun Lee; Nicolas Charon; Benjamin Charlier; Karteek Popuri; Evgeniy Lebed; Marinko V. Sarunic; Alain Trouvé; Mirza Faisal Beg (Medical Image Anal., 2017)

Multiscale deep neural network based analysis of FDG-PET images for the early diagnosis of Alzheimer's disease. - Donghuan Lu; Karteek Popuri; Gavin Weiguang Ding; Rakesh Balachandar; Mirza Faisal Beg (Medical Image Anal., 2018)

Muscle segmentation in axial computed tomography (CT) images at the lumbar (L3) and thoracic (T4) levels for body composition analysis. - Setareh Dabiri; Karteek Popuri; Elizabeth M. Cespedes Feliciano; Bette J. Caan; Vickie E. Baracos; Mirza Faisal Beg (Comput. Medical Imaging Graph., 2019)

Deep learning vessel segmentation and quantification of the foveal avascular zone using commercial and prototype OCT-A platforms. - Morgan Heisler; Forson Chan; Zaid Mammo; Chandrakumar Balaratnasingam; Pavle Prentasic; Gavin Docherty; MyeongJin Ju; Sanjeeva Rajapakse; Sieun Lee; Andrew B. Merkur; Andrew W. Kirker; David A. Albiani; et al. (CoRR, 2019)

Cascaded Deep Neural Networks for Retinal Layer Segmentation of Optical Coherence Tomography with Fluid Presence. - Donghuan Lu; Morgan Heisler; Da Ma; Setareh Dabiri; Sieun Lee; Gavin Weiguang Ding; Marinko V. Sarunic; Mirza Faisal Beg (CoRR, 2019)

Deep-learning based multiclass retinal fluid segmentation and detection in optical coherence tomography images using a fully convolutional neural network. - Donghuan Lu; Morgan Heisler; Sieun Lee; Gavin Weiguang Ding; Eduardo Navajas; Marinko V. Sarunic; Mirza Faisal Beg (Medical Image Anal., 2019)

RETOUCH: The Retinal OCT Fluid Detection and Segmentation Benchmark and Challenge. - Hrvoje Bogunovic; Freerk G. Venhuizen; Sophie Klimscha; Stefanos Apostolopoulos; Alireza Bab-Hadiashar; Ulas Bagci; Mirza Faisal Beg; Loza Bekalo; Qiang Chen 004; Carlos Ciller; Karthik Gopinath; Amirali K. Gostar; et al. (IEEE Trans. Medical Imaging, 2019)

Cascade Dual-branch Deep Neural Networks for Retinal Layer and fluid Segmentation of Optical Coherence Tomography Incorporating Relative Positional Map. - Da Ma; Donghuan Lu; Morgan Heisler; Setareh Dabiri; Sieun Lee; Gavin Weiguang Ding; Marinko V. Sarunic; Mirza Faisal Beg (MIDL, 2020)

Deep learning method for localization and segmentation of abdominal CT. - Setareh Dabiri; Karteek Popuri; Cydney Ma; Vincent Chow; Elizabeth M. Cespedes Feliciano; Bette J. Caan; Vickie E. Baracos; Mirza Faisal Beg (Comput. Medical Imaging Graph., 2020)

Microvasculature Segmentation and Inter-capillary Area Quantification of the Deep Vascular Complex using Transfer Learning. - Julian Lo; Morgan Heisler; Vinicius Vanzan; Sonja Karst; Ivana Zadro Matovinovic; Sven Loncaric; Eduardo V. Navajas; Mirza Faisal Beg; Marinko V. Sarunic (CoRR, 2020)

Substantially thinner internal granular layer and reduced molecular layer surface in the cerebellar cortex of the Tc1 mouse model of down syndrome - a comprehensive morphometric analysis with active staining contrast-enhanced MRI. - Da Ma; Manuel Jorge Cardoso; Maria A. Zuluaga; Marc Modat; Nick M. Powell; Frances K. Wiseman; Jon O. Cleary; Benjamin Sinclair; Ian F. Harrison; Bernard Siow; Karteek Popuri; Sieun Lee; et al. (NeuroImage, 2020)

Spectral Bandwidth Recovery of Optical Coherence Tomography Images using Deep Learning. - Timothy T. L. Yu; Da Ma; Jayden Cole; MyeongJin Ju; Mirza Faisal Beg; Marinko V. Sarunic (ISPA, 2021)

LF-UNet - A novel anatomical-aware dual-branch cascaded deep neural network for segmentation of retinal layers and fluid from optical coherence tomography images. - Da Ma; Donghuan Lu; Shuo Chen; Morgan Heisler; Setareh Dabiri; Sieun Lee; Hyunwoo Lee 007; Gavin Weiguang Ding; Marinko V. Sarunic; Mirza Faisal Beg (Comput. Medical Imaging Graph., 2021)

Comprehensive Validation of Automated Whole Body Skeletal Muscle, Adipose Tissue, and Bone Segmentation from 3D CT images for Body Composition Analysis: Towards Extended Body Composition. - Da Ma; Vincent Chow; Karteek Popuri; Mirza Faisal Beg (CoRR, 2021)

Domain Adaptation via CycleGAN for Retina Segmentation in Optical Coherence Tomography. - Ricky Chen; Timothy T. L. Yu; Gavin Xu; Da Ma; Marinko V. Sarunic; Mirza Faisal Beg (CoRR, 2021)

Differential Diagnosis of Frontotemporal Dementia and Alzheimer's Disease using Generative Adversarial Network. - Da Ma; Donghuan Lu; Karteek Popuri; Mirza Faisal Beg (CoRR, 2021)

Clinical explainable differential diagnosis of polypoidal choroidal vasculopathy and age-related macular degeneration using deep learning. - Da Ma; Meenakshi Kumar; Vikas Khetan; Parveen Sen; Muna Bhende; Shuo Chen; Timothy T. L. Yu; Sieun Lee; Eduardo V. Navajas; Joanne A. Matsubara; Myeong Jin Ju; Marinko V. Sarunic; et al. (Comput. Biol. Medicine, 2022)

3D hemisphere-based convolutional neural network for whole-brain MRI segmentation. - Evangeline Yee; Da Ma; Karteek Popuri; Shuo Chen; Hyunwoo Lee 007; Vincent Chow; Cydney Ma; Lei Wang; Mirza Faisal Beg (Comput. Medical Imaging Graph., 2022)

Machine Learning Based Multimodal Neuroimaging Genomics Dementia Score for Predicting Future Conversion to Alzheimer's Disease. - Ghazal Mirabnahrazam; Da Ma; Sieun Lee; Karteek Popuri; Hyunwoo Lee 007; Jiguo Cao; Lei Wang; James E. Galvin; Mirza Faisal Beg; Alzheimer's Disease Neuroimaging Initiative (CoRR, 2022)

Predicting Time-to-conversion for Dementia of Alzheimer's Type using Multi-modal Deep Survival Analysis. - Ghazal Mirabnahrazam; Da Ma; Cédric Beaulac; Sieun Lee; Karteek Popuri; Hyunwoo Lee 007; Jiguo Cao; James E. Galvin; Lei Wang; Mirza Faisal Beg; Alzheimer's Disease Neuroimaging Initiative (CoRR, 2022)

Investigating the temporal pattern of neuroimaging-based brain age estimation as a biomarker for Alzheimer's Disease related neurodegeneration. - Alexei Taylor; Fengqing (Zoe) Zhang; Xin Niu; Ashley Heywood; Jane Stocks; Gangyi Feng; Karteek Popuri; Mirza Faisal Beg; Lei Wang 032 (NeuroImage, 2022)

Two-Dimensional Functional Principal Component Analysis for Image Feature Extraction. - Haolun Shi; Yuping Yang; Liangliang Wang; Da Ma; Mirza Faisal Beg; Jian Pei 001; Jiguo Cao (J. Comput. Graph. Stat., 2022)

Segmentation-guided domain adaptation and data harmonization of multi-device retinal optical coherence tomography using cycle-consistent generative adversarial networks. - Shuo Chen; Da Ma; Sieun Lee; Timothy T. L. Yu; Gavin Xu; Donghuan Lu; Karteek Popuri; Myeong Jin Ju; Marinko V. Sarunic; Mirza Faisal Beg (Comput. Biol. Medicine, 2023)

Neuroimaging feature extraction using a neural network classifier for imaging genetics. - Cédric Beaulac; Sidi Wu; Erin Gibson; Michelle F. Miranda; Jiguo Cao; Leno Rocha; Mirza Faisal Beg; Farouk S. Nathoo (BMC Bioinform., 2023)

Automated Body Composition Analysis Using DAFS Express on 2D MRI Slices at L3 Vertebral Level. - Varun Akella; Razeyeh Bagherinasab; Jia Ming Li; Long Nguyen; Vincent Tze Yang Chow; Hyunwoo Lee 007; Karteek Popuri; Mirza Faisal Beg (CoRR, 2024)

Dynamic Survival Prediction Using Sparse Longitudinal Images via Multi-Dimensional Functional Principal Component Analysis. - Haolun Shi; Shu Jiang; Da Ma; Mirza Faisal Beg; Jiguo Cao (J. Comput. Graph. Stat., 2024)

Automated Retinal Layer and Fluid Segmentation and Cross-sectional Analysis using Spectral Domain Optical Coherence Tomography Images for Diabetic Retinopathy. - S. Chen; Da Ma; M. Raviselvan; S. Sundaramoorthy; Karteek Popuri; Myeong Jin Ju; Marinko Sarunic; D. Ratra; Mirza Faisal Beg (CoRR, 2025)