An integrated framework for analyzing three-dimensional shape differences: evaluating prostate morphometry. - Rachel Sparks; Robert Toth; Jonathan Chappelow; Gaoyu Xiao; Anant Madabhushi (ISBI, 2010)

Novel Morphometric Based Classification via Diffeomorphic Based Shape Representation Using Manifold Learning. - Rachel Sparks; Anant Madabhushi (MICCAI (3), 2010)

High-Throughput Prostate Cancer Gland Detection, Segmentation, and Classification from Digitized Needle Core Biopsies. - Jun Xu 005; Rachel Sparks; Andrew Janowczyk; John Tomaszewski 001; Michael D. Feldman; Anant Madabhushi (Prostate Cancer Imaging, 2010)

Out-of-sample extrapolation using semi-supervised manifold learning (OSE-SSL): Content-based image retrieval for prostate histology grading. - Rachel Sparks; Anant Madabhushi (ISBI, 2011)

Medial axis based statistical shape model (MASSM): Applications to 3D prostate segmentation on MRI. - Robert Toth; Rachel Sparks; Anant Madabhushi (ISBI, 2011)

Content-based image retrieval utilizing explicit shape descriptors: applications to breast MRI and prostate histopathology. - Rachel Sparks; Anant Madabhushi (Image Processing, 2011)

Gleason grading of prostate histology utilizing manifold regularization via statistical shape model of manifolds. - Rachel Sparks; Anant Madabhushi (Computer-Aided Diagnosis, 2012)

Anisotropic smoothing regularization (AnSR) in Thirion's Demons registration evaluates brain MRI tissue changes post-laser ablation. - Eileen Hwuang; Shabbar Danish; Mirabela Rusu; Rachel Sparks; Robert Toth; Anant Madabhushi (EMBC, 2013)

Co-occurring gland tensors in localized cluster graphs: Quantitative histomorphometry for predicting biochemical recurrence for intermediate grade prostate cancer. - George Lee 002; Rachel Sparks; Sahirzeeshan Ali; Anant Madabhushi; Michael D. Feldman; Stephen R. Master; Natalie Shih; John Tomaszewski 001 (ISBI, 2013)

Identifying in vivo DCE MRI parameters correlated with ex vivo quantitative microvessel architecture: A radiohistomorphometric approach. - Asha Singanamalli; Rachel Sparks; Mirabela Rusu; Natalie Shih; Amy Ziober; John Tomaszewski 001; Mark Rosen; Michael D. Feldman; Anant Madabhushi (Digital Pathology, 2013)

Fully automated prostate magnetic resonance imaging and transrectal ultrasound fusion via a probabilistic registration metric. - Rachel Sparks; B. Nicolas Bloch; Ernest J. Feleppa; Dean C. Barratt; Anant Madabhushi (Image-Guided Procedures, 2013)

Statistical shape model for manifold regularization: Gleason grading of prostate histology. - Rachel Sparks; Anant Madabhushi (Comput. Vis. Image Underst., 2013)

Explicit shape descriptors: Novel morphologic features for histopathology classification. - Rachel Sparks; Anant Madabhushi (Medical Image Anal., 2013)

Spectral embedding-based registration (SERg) for multimodal fusion of prostate histology and MRI. - Eileen Hwuang; Mirabela Rusu; Sudha Karthigeyan; Shannon Agner; Rachel Sparks; Natalie Shih; John Tomaszewski 001; Mark Rosen; Michael D. Feldman; Anant Madabhushi (Image Processing, 2014)

Spatially aware expectation maximization (SpAEM): application to prostate TRUS segmentation. - Mahdi Orooji; Rachel Sparks; B. Nicolas Bloch; Ernest J. Feleppa; Dean C. Barratt; Anant Madabhushi (Image Processing, 2014)

Efficient Anatomy Driven Automated Multiple Trajectory Planning for Intracranial Electrode Implantation. - Rachel Sparks; Gergely Zombori; Roman Rodionov; Maria A. Zuluaga; Beate Diehl; Tim Wehner; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (MICCAI (1), 2016)

Anatomy-driven multiple trajectory planning (ADMTP) of intracranial electrodes for epilepsy surgery. - Rachel Sparks; Vejay Vakharia; Roman Rodionov; Sjoerd B. Vos; Beate Diehl; Tim Wehner; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2017)

Automated multiple trajectory planning algorithm for the placement of stereo-electroencephalography (SEEG) electrodes in epilepsy treatment. - Rachel Sparks; Gergely Zombori; Roman Rodionov; Mark Nowell; Sjoerd B. Vos; Maria A. Zuluaga; Beate Diehl; Tim Wehner; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2017)

A Machine Learning Approach to Predict Instrument Bending in Stereotactic Neurosurgery. - Alejandro Granados; Matteo Mancini; Sjoerd B. Vos; Oeslle Lucena; Vejay Vakharia; Roman Rodionov; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Rachel Sparks; Sébastien Ourselin (MICCAI (4), 2018)

Automatic segmentation of stereoelectroencephalography (SEEG) electrodes post-implantation considering bending. - Alejandro Granados; Vejay Vakharia; Roman Rodionov; Martin Schweiger; Sjoerd B. Vos; Aidan G. O'Keeffe; Kuo Li; Chengyuan Wu; Anna Miserocchi; Andrew W. McEvoy; Matthew J. Clarkson; John S. Duncan; et al. (Int. J. Comput. Assist. Radiol. Surg., 2018)

A Generative Model of Hyperelastic Strain Energy Density Functions for Real-Time Simulation of Brain Tissue Deformation. - Alejandro Granados; Martin Schweiger; Vejay Vakharia; Andrew W. McEvoy; Anna Miserocchi; John S. Duncan; Rachel Sparks; Sébastien Ourselin (MICCAI (5), 2019)

Towards Uncertainty Quantification for Electrode Bending Prediction in Stereotactic Neurosurgery. - Alejandro Granados; Oeslle Lucena; Vejay Vakharia; Anna Miserocchi; Andrew W. McEvoy; Sjoerd B. Vos; Roman Rodionov; John S. Duncan; Rachel Sparks; Sébastien Ourselin (ISBI, 2020)

Simulation of Brain Resection for Cavity Segmentation Using Self-supervised and Semi-supervised Learning. - Fernando Pérez-García; Roman Rodionov; Ali Alim-Marvasti; Rachel Sparks; John S. Duncan; Sébastien Ourselin (MICCAI (3), 2020)

Using convolution neural networks to learn enhanced fiber orientation distribution models from commercially available diffusion magnetic resonance imaging. - Oeslle Lucena; Sjoerd B. Vos; Vejay Vakharia; John S. Duncan; Keyoumars Ashkan; Rachel Sparks; Sébastien Ourselin (CoRR, 2020)

Transfer Learning of Deep Spatiotemporal Networks to Model Arbitrarily Long Videos of Seizures. - Fernando Pérez-García; Catherine J. Scott; Rachel Sparks; Beate Diehl; Sébastien Ourselin (MICCAI (5), 2021)

Patient-specific prediction of SEEG electrode bending for stereotactic neurosurgical planning. - Alejandro Granados; Yuxuan Han; Oeslle Lucena; Vejay Vakharia; Roman Rodionov; Sjoerd B. Vos; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Rachel Sparks; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2021)

A generative model of hyperelastic strain energy density functions for multiple tissue brain deformation. - Alejandro Granados; Fernando Pérez-García; Martin Schweiger; Vejay Vakharia; Sjoerd B. Vos; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Rachel Sparks; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2021)

A self-supervised learning strategy for postoperative brain cavity segmentation simulating resections. - Fernando Pérez-García; Reuben Dorent; Michele Rizzi; Francesco Cardinale; Valerio Frazzini; Vincent Navarro; Caroline Essert; Irène Ollivier; Tom Vercauteren; Rachel Sparks; John S. Duncan; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2021)

Enhancing the estimation of fiber orientation distributions using convolutional neural networks. - Oeslle Lucena; Sjoerd B. Vos; Vejay Vakharia; John S. Duncan; Keyoumars Ashkan; Rachel Sparks; Sébastien Ourselin (Comput. Biol. Medicine, 2021)

TorchIO: A Python library for efficient loading, preprocessing, augmentation and patch-based sampling of medical images in deep learning. - Fernando Pérez-García; Rachel Sparks; Sébastien Ourselin (Comput. Methods Programs Biomed., 2021)

Machine Learning for Localizing Epileptogenic-Zone in the Temporal Lobe: Quantifying the Value of Multimodal Clinical-Semiology and Imaging Concordance. - Ali Alim-Marvasti; Fernando Pérez-García; Karan Dahele; Gloria Romagnoli; Beate Diehl; Rachel Sparks; Sébastien Ourselin; Matthew J. Clarkson; John S. Duncan (Frontiers Digit. Health, 2021)

Brain Lesion Synthesis via Progressive Adversarial Variational Auto-Encoder. - Jiayu Huo; Vejay Vakharia; Chengyuan Wu; Ashwini Sharan; Andrew Ko; Sébastien Ourselin; Rachel Sparks (SASHIMI@MICCAI, 2022)

MAPPING: Model Average with Post-processing for Stroke Lesion Segmentation. - Jiayu Huo; Liyun Chen; Yang Liu 271; Maxence Boels; Alejandro Granados; Sébastien Ourselin; Rachel Sparks (CoRR, 2022)

Software tool for visualization of a probabilistic map of the epileptogenic zone from seizure semiologies. - Fernando Pérez-García; Ali Alim-Marvasti; Gloria Romagnoli; Matthew J. Clarkson; Rachel Sparks; John S. Duncan; Sébastien Ourselin (Frontiers Neuroinformatics, 2022)

SKiT: a Fast Key Information Video Transformer for Online Surgical Phase Recognition. - Yang Liu 271; Jiayu Huo; Jingjing Peng; Rachel Sparks; Prokar Dasgupta; Alejandro Granados; Sébastien Ourselin (ICCV, 2023)

Unleash the Power of 2D Pre-trained Model for 3D T1-weighted Brain MRI Inpainting. - Jiayu Huo; Chih-Yang Li; Alejandro Granados; Sébastien Ourselin; Rachel Sparks (BraTS/CrossMoDA@MICCAI, 2023)

ARHNet: Adaptive Region Harmonization for Lesion-Aware Augmentation to Improve Segmentation Performance. - Jiayu Huo; Yang Liu 271; Xi Ouyang; Alejandro Granados; Sébastien Ourselin; Rachel Sparks (MLMI@MICCAI (2), 2023)

MatchSeg: Towards Better Segmentation via Reference Image Matching. - Jiayu Huo; Ruiqiang Xiao; Haotian Zheng; Yang Liu 271; Sébastien Ourselin; Rachel Sparks (BIBM, 2024)

DDSB: An Unsupervised and Training-Free Method for Phase Detection in Echocardiography. - Zhenyu Bu; Yang Liu 271; Jiayu Huo; Jingjing Peng; Kaini Wang; Guangquan Zhou; Rachel Sparks; Prokar Dasgupta; Alejandro Granados; Sébastien Ourselin (MLMI@MICCAI (1), 2024)

SAR-RARP50: Segmentation of surgical instrumentation and Action Recognition on Robot-Assisted Radical Prostatectomy Challenge. - Dimitrios Psychogyios; Emanuele Colleoni; Beatrice van Amsterdam; Chih-Yang Li; Shu-Yu Huang; Yuchong Li; Fucang Jia; Baosheng Zou; Guotai Wang; Yang Liu 271; Maxence Boels; Jiayu Huo; et al. (CoRR, 2024)

Rethinking Low-quality Optical Flow in Unsupervised Surgical Instrument Segmentation. - Peiran Wu; Yang Liu 271; Jiayu Huo; Gongyu Zhang; Christos Bergeles; Rachel Sparks; Prokar Dasgupta; Alejandro Granados; Sébastien Ourselin (CoRR, 2024)

RetiGen: A Framework for Generalized Retinal Diagnosis Using Multi-View Fundus Images. - Ze Chen; Gongyu Zhang; Jiayu Huo; Joan M. Nunez Do Rio; Charalampos Komninos; Yang Liu 271; Rachel Sparks; Sébastien Ourselin; Christos Bergeles; Timothy Jackson (CoRR, 2024)

A Robust Ensemble Algorithm for Ischemic Stroke Lesion Segmentation: Generalizability and Clinical Utility Beyond the ISLES Challenge. - Ezequiel de la Rosa; Mauricio Reyes 001; Sook-Lei Liew; Alexandre Hutton; Roland Wiest; Johannes Kaesmacher; Uta Hanning; Arsany Hakim; Richard Zubal; Waldo Valenzuela; David Robben; Diana Maria Sima; et al. (CoRR, 2024)

Deep Learning-Based Classification of Hyperkinetic Movement Disorders in Children. - Nandika Ramamurthy; Daniel Lumsden; Rachel Sparks (CoRR, 2024)

Generative Medical Segmentation. - Jiayu Huo; Xi Ouyang; Sébastien Ourselin; Rachel Sparks (AAAI, 2025)

SAM-I2I: Unleash the Power of Segment Anything Model for Medical Image Translation. - Jiayu Huo; Sébastien Ourselin; Rachel Sparks (ISBI, 2025)

Self-supervised brain lesion generation for effective data augmentation of medical images. - Jiayu Huo; Sébastien Ourselin; Rachel Sparks (Neural Networks, 2025)