Pulsative Flow Segmentation in MRA Image Series by AR Modeling and EM Algorithm. - Ali Gooya; Hongen Liao; Kiyoshi Matsumiya; Ken Masamune; Takeyoshi Dohi (MIAR, 2006)

Effective Statistical Edge Integration Using a Flux Maximizing Scheme for Volumetric Vascular Segmentation in MRA. - Ali Gooya; Hongen Liao; Kiyoshi Matsumiya; Ken Masamune; Takeyoshi Dohi (IPMI, 2007)

A Shape Induced Anisotropic Flowfor Volumetric Vascular Segmentation in MRA. - Ali Gooya; Hongen Liao; Kiyoshi Matsumiya; Ken Masamune; Takeyoshi Dohi (ISBI, 2007)

Anisotropic Haralick Edge Detection Scheme with Application to Vessel Segmentation. - Ali Gooya; Takeyoshi Dohi; Ichiro Sakuma; Hongen Liao (MIAR, 2008)

R-PLUS: A Riemannian Anisotropic Edge Detection Scheme for Vascular Segmentation. - Ali Gooya; Takeyoshi Dohi; Ichiro Sakuma; Hongen Liao (MICCAI (1), 2008)

A Variational Method for Geometric Regularization of Vascular Segmentation in Medical Images. - Ali Gooya; Hongen Liao; Kiyoshi Matsumiya; Ken Masamune; Yoshitaka Masutani; Takeyoshi Dohi (IEEE Trans. Image Process., 2008)

Application of trace-norm and low-rank matrix decomposition for computational anatomy. - Nematollah Batmanghelich; Ali Gooya; Stathis Kanterakis; Ben Taskar; Christos Davatzikos (CVPR Workshops, 2010)

An EM algorithm for brain tumor image registration: A tumor growth modeling based approach. - Ali Gooya; George Biros; Christos Davatzikos (CVPR Workshops, 2010)

Multi-parametric analysis and registration of brain tumors: Constructing statistical atlases and diagnostic tools of predictive value. - Christos Davatzikos; Evangelia I. Zacharaki; Ali Gooya; Vanessa Clark (EMBC, 2011)

Joint Segmentation and Deformable Registration of Brain Scans Guided by a Tumor Growth Model. - Ali Gooya; Kilian M. Pohl; Michel Bilello; George Biros; Christos Davatzikos (MICCAI (2), 2011)

Deformable Registration of Glioma Images Using EM Algorithm and Diffusion Reaction Modeling. - Ali Gooya; George Biros; Christos Davatzikos (IEEE Trans. Medical Imaging, 2011)

Generalization of geometrical flux maximizing flow on Riemannian manifolds for improved volumetric blood vessel segmentation. - Ali Gooya; Hongen Liao; Ichiro Sakuma (Comput. Medical Imaging Graph., 2012)

GLISTR: Glioma Image Segmentation and Registration. - Ali Gooya; Kilian M. Pohl; Michel Bilello; Luigi Cirillo; George Biros; Elias R. Melhem; Christos Davatzikos (IEEE Trans. Medical Imaging, 2012)

A Bayesian Approach for Construction of Sparse Statistical Shape Models Using Dirichlet Distribution. - Ali Gooya; Elaheh Mousavi; Christos Davatzikos; Hongen Liao (AE-CAI, 2013)

Joint Clustering and Component Analysis of Correspondenceless Point Sets: Application to Cardiac Statistical Modeling. - Ali Gooya; Karim Lekadir; Xènia Albà; Andrew J. Swift; Jim M. Wild; Alejandro F. Frangi (IPMI, 2015)

Joint Clustering and Component Analysis of Spatio-Temporal Shape Patterns in Myocardial Infarction. - Catarina Pinto; Serkan Çimen; Ali Gooya; Karim Lekadir; Alejandro F. Frangi (STACOM@MICCAI, 2015)

A novel multi-scale Hessian based spot enhancement filter for two dimensional gel electrophoresis images. - Sina Shamekhi; Mohammad Hossein Miran Baygi; Bahareh Azarian; Ali Gooya (Comput. Biol. Medicine, 2015)

A Bayesian Approach to Sparse Model Selection in Statistical Shape Models. - Ali Gooya; Christos Davatzikos; Alejandro F. Frangi (SIAM J. Imaging Sci., 2015)

Reconstruction of Coronary Artery Centrelines from X-Ray Angiography Using a Mixture of Student's t-Distributions. - Serkan Çimen; Ali Gooya; Nishant Ravikumar; Zeike A. Taylor; Alejandro F. Frangi (MICCAI (3), 2016)

A Multi-resolution T-Mixture Model Approach to Robust Group-Wise Alignment of Shapes. - Nishant Ravikumar; Ali Gooya; Serkan Çimen; Alejandro F. Frangi; Zeike A. Taylor (MICCAI (3), 2016)

Direct Estimation of Wall Shear Stress from Aneurysmal Morphology: A Statistical Approach. - Ali Sarrami-Foroushani; Toni Lassila; Jose M. Pozo; Ali Gooya; Alejandro F. Frangi (MICCAI (3), 2016)

Automated Quality Assessment of Cardiac MR Images Using Convolutional Neural Networks. - Le Zhang 005; Ali Gooya; Bo Dong 001; Rui Hua; Steffen E. Petersen; Pau Medrano-Gracia; Alejandro F. Frangi (SASHIMI@MICCAI, 2016)

Reconstruction of coronary artery centrelines from X-ray rotational angiography using a probabilistic mixture model. - Serkan Çimen; Ali Gooya; Alejandro F. Frangi (Image Processing, 2016)

Robust group-wise rigid registration of point sets using t-mixture model. - Nishant Ravikumar; Ali Gooya; Alejandro F. Frangi; Zeike A. Taylor (Image Processing, 2016)

Reconstruction of coronary arteries from X-ray angiography: A review. - Serkan Çimen; Ali Gooya; Michael Grass 001; Alejandro F. Frangi (Medical Image Anal., 2016)

Precision Imaging: more descriptive, predictive and integrative imaging. - Alejandro F. Frangi; Zeike A. Taylor; Ali Gooya (Medical Image Anal., 2016)

Multi-class Image Segmentation in Fluorescence Microscopy Using Polytrees. - Hamid Fehri; Ali Gooya; Simon A. Johnston; Alejandro F. Frangi (IPMI, 2017)

Generalised Coherent Point Drift for Group-Wise Registration of Multi-dimensional Point Sets. - Nishant Ravikumar; Ali Gooya; Alejandro F. Frangi; Zeike A. Taylor (MICCAI (1), 2017)

Semi-supervised Assessment of Incomplete LV Coverage in Cardiac MRI Using Generative Adversarial Nets. - Le Zhang 005; Ali Gooya; Alejandro F. Frangi (SASHIMI@MICCAI, 2017)

Vascular tree tracking and bifurcation points detection in retinal images using a hierarchical probabilistic model. - Soodeh Kalaie; Ali Gooya (Comput. Methods Programs Biomed., 2017)

Segmentation of Lesions in Dermoscopy Images Using Saliency Map And Contour Propagation. - Mostafa Jahanifar; Neda Zamani Tajeddin; Ali Gooya; Babak Mohammadzadeh Asl (CoRR, 2017)

High Throughput Computation of Reference Ranges of Biventricular Cardiac Function on the UK Biobank Population Cohort. - Rahman Attar; Marco Pereañez; Ali Gooya; Xènia Albà; Le Zhang 005; Stefan K. Piechnik; Stefan Neubauer; Steffen E. Petersen; Alejandro F. Frangi (STACOM@MICCAI, 2018)

Nuclei Detection Using Mixture Density Networks. - Navid Alemi Koohbanani; Mostafa Jahanifar; Ali Gooya; Nasir M. Rajpoot (MLMI@MICCAI, 2018)

Leveraging Transfer Learning for Segmenting Lesions and their Attributes in Dermoscopy Images. - Navid Alemi Koohbanani; Mostafa Jahanifar; Neda Zamani Tajeddin; Ali Gooya; Nasir M. Rajpoot (CoRR, 2018)

Automatic Assessment of Full Left Ventricular Coverage in Cardiac Cine Magnetic Resonance Imaging with Fisher-Discriminative 3D CNN. - Le Zhang 005; Ali Gooya; Marco Pereañez; Bo Dong 001; Stefan K. Piechnik; Stefan Neubauer; Steffen E. Petersen; Alejandro F. Frangi (CoRR, 2018)

Group-wise similarity registration of point sets using Student's t-mixture model for statistical shape models. - Nishant Ravikumar; Ali Gooya; Serkan Çimen; Alejandro F. Frangi; Zeike A. Taylor (Medical Image Anal., 2018)

Mixture of Probabilistic Principal Component Analyzers for Shapes from Point Sets. - Ali Gooya; Karim Lekadir; Isaac Castro-Mateos; José María Pozo; Alejandro F. Frangi (IEEE Trans. Pattern Anal. Mach. Intell., 2018)

Statistical Shape Modeling of the Left Ventricle: Myocardial Infarct Classification Challenge. - Avan Suinesiaputra; Pierre Ablin; Xènia Albà; Martino Alessandrini; Jack Allen; Wenjia Bai; Serkan Çimen; Peter Claes; Brett R. Cowan; Jan D'hooge; Nicolas Duchateau; Jan Ehrhardt; et al. (IEEE J. Biomed. Health Informatics, 2018)

Nuclear Instance Segmentation Using a Proposal-Free Spatially Aware Deep Learning Framework. - Navid Alemi Koohbanani; Mostafa Jahanifar; Ali Gooya; Nasir M. Rajpoot (MICCAI (1), 2019)

Quantitative CMR population imaging on 20, 000 subjects of the UK Biobank imaging study: LV/RV quantification pipeline and its evaluation. - Rahman Attar; Marco Pereañez; Ali Gooya; Xènia Albà; Le Zhang 005; Milton Hoz de Vila; Aaron M. Lee; Nay Aung; Elena Lukaschuk; Mihir M. Sanghvi; Kenneth Fung; José Miguel Paiva; et al. (Medical Image Anal., 2019)

Generalised coherent point drift for group-wise multi-dimensional analysis of diffusion brain MRI data. - Nishant Ravikumar; Ali Gooya; Leandro Beltrachini; Alejandro F. Frangi; Zeike A. Taylor (Medical Image Anal., 2019)

Automatic Assessment of Full Left Ventricular Coverage in Cardiac Cine Magnetic Resonance Imaging With Fisher-Discriminative 3-D CNN. - Le Zhang 005; Ali Gooya; Marco Pereañez; Bo Dong 001; Stefan K. Piechnik; Stefan Neubauer; Steffen E. Petersen; Alejandro F. Frangi (IEEE Trans. Biomed. Eng., 2019)

Bayesian Polytrees With Learned Deep Features for Multi-Class Cell Segmentation. - Hamid Fehri; Ali Gooya; Yuanjun Lu; Erik Meijering; Simon A. Johnston; Alejandro F. Frangi (IEEE Trans. Image Process., 2019)

Supervised Saliency Map Driven Segmentation of Lesions in Dermoscopic Images. - Mostafa Jahanifar; Neda Zamani Tajeddin; Babak Mohammadzadeh Asl; Ali Gooya (IEEE J. Biomed. Health Informatics, 2019)

A Multi-Organ Nucleus Segmentation Challenge. - Neeraj Kumar 002; Ruchika Verma; Deepak Anand; Yanning Zhou 001; Omer Fahri Onder; Efstratios Tsougenis; Hao Chen 011; Pheng-Ann Heng; Jiahui Li 005; Zhiqiang Hu; Yunzhi Wang; Navid Alemi Koohbanani; et al. (IEEE Trans. Medical Imaging, 2020)

Weakly-supervised learning for image-based classification of primary melanomas into genomic immune subgroups. - Lucy Godson; Navid Alemi Koohbanani; Jeremie Nsengimana; Graham P. Cook; Emily L. Clarke; Darren Treanor; D. Timothy Bishop; Julia Newton-Bishop; Ali Gooya (MIDL, 2022)

A probabilistic deep motion model for unsupervised cardiac shape anomaly assessment. - Arezoo Zakeri; Alireza Hokmabadi; Nishant Ravikumar; Alejandro F. Frangi; Ali Gooya (Medical Image Anal., 2022)

Deep learning with visual explanation for radiotherapy-induced toxicity prediction. - Behnaz Elhaminia; Alexandra Gilbert; Alejandro F. Frangi; Andrew F. Scarsbrook; John Lilley; Ane Appelt; Ali Gooya (Computer-Aided Diagnosis, 2023)

A Geometric Deep Learning Framework for Generation of Virtual Left Ventricles as Graphs. - Soodeh Kalaie; Andrew J. Bulpitt; Alejandro F. Frangi; Ali Gooya (MIDL, 2023)

DragNet: Learning-based deformable registration for realistic cardiac MR sequence generation from a single frame. - Arezoo Zakeri; Alireza Hokmabadi; Ning Bi; Isuru Wijesinghe; Michael G. Nix; Steffen E. Petersen; Alejandro F. Frangi; Zeike A. Taylor; Ali Gooya (Medical Image Anal., 2023)

Toxicity Prediction in Pelvic Radiotherapy Using Multiple Instance Learning and Cascaded Attention Layers. - Behnaz Elhaminia; Alexandra Gilbert; John Lilley; Moloud Abdar; Alejandro F. Frangi; Andrew F. Scarsbrook; Ane Appelt; Ali Gooya (IEEE J. Biomed. Health Informatics, 2023)

4D-Precise: Learning-based 3D motion estimation and high temporal resolution 4DCT reconstruction from treatment 2D+t X-ray projections. - Arezoo Zakeri; Alireza Hokmabadi; Michael G. Nix; Ali Gooya; Isuru Wijesinghe; Zeike A. Taylor (Comput. Methods Programs Biomed., 2024)

Deep-Motion-Net: GNN-based volumetric organ shape reconstruction from single-view 2D projections. - Isuru Wijesinghe; Michael G. Nix; Arezoo Zakeri; Alireza Hokmabadi; Bashar Al-Qaisieh; Ali Gooya; Zeike A. Taylor (CoRR, 2024)

Immune subtyping of melanoma whole slide images using multiple instance learning. - Lucy Godson; Navid Alemi Koohbanani; Jeremie Nsengimana; Graham P. Cook; Emily L. Clarke; Darren Treanor; D. Timothy Bishop; Julia Newton-Bishop; Ali Gooya; Derek R. Magee (Medical Image Anal., 2024)

UDF-GMA: Uncertainty Disentanglement and Fusion for General Movement Assessment. - Zeqi Luo; Ali Gooya; Edmond S. L. Ho (CoRR, 2025)

FractMorph: A Fractional Fourier-Based Multi-Domain Transformer for Deformable Image Registration. - Shayan Kebriti; Shahabedin Nabavi; Ali Gooya (CoRR, 2025)

CardioMorphNet: Cardiac Motion Prediction Using a Shape-Guided Bayesian Recurrent Deep Network. - Reza Akbari Movahed; Abuzar Rezaee; Arezoo Zakeri; Colin Berry; Edmond S. L. Ho; Ali Gooya (CoRR, 2025)

An End-to-End Deep Learning Generative Framework for Refinable Shape Matching and Generation. - Soodeh Kalaie; Andy Bulpitt; Alejandro F. Frangi; Ali Gooya (IEEE Trans. Medical Imaging, 2025)

SegMorph: Concurrent Motion Estimation and Segmentation for Cardiac MRI Sequences. - Ning Bi; Arezoo Zakeri; Yan Xia 002; Nina Cheng; Alejandro F. Frangi; Ali Gooya (IEEE Trans. Medical Imaging, 2025)