Next Generation Machine Intelligence for Medical Image Representation and Analysis

Analyzing Overfitting under Class Imbalance in Neural Networks for Image Segmentation

Author(s): Zeju Li, Konstantinos Kamnitsas, Ben Glocker
Published in: IEEE Transactions on Medical Imaging, 2020, Page(s) 1-1, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2020.3046692

Morpho-MNIST: quantitative assessment and diagnostics for representation learning

Author(s): Castro, Daniel C.; Tan, Jeremy; Kainz, Bernhard; Konukoglu, Ender; Glocker, Ben
Published in: Journal of Machine Learning Research, Issue 20(178), 2019, Page(s) 1-20, ISSN 1533-7928
Publisher: JMLR
DOI: 10.3929/ethz-b-000391770

Algorithmic encoding of protected characteristics in image-based models for disease detection

Author(s): Glocker, Ben; Jones, Charles; Bernhardt, Melanie; Winzeck, Stefan
Published in: eBioMedicine, Issue 6, 2023, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.48550/arxiv.2110.14755

Structured Uncertainty in the Observation Space of Variational Autoencoders

Author(s): Langley, James; Monteiro, Miguel; Jones, Charles; Pawlowski, Nick; Glocker, Ben
Published in: Transactions on Machine Learning Research, Issue 6, 2022, ISSN 0000-0000
Publisher: JMLR
DOI: 10.48550/arxiv.2205.12533

Relationship of admission blood proteomic biomarkers levels to lesion type and lesion burden in traumatic brain injury: A CENTER-TBI study

Author(s): Daniel P. Whitehouse, Miguel Monteiro, Endre Czeiter, Thijs Vande Vyvere, Fernanda Valerio, Zheng Ye, Krisztina Amrein, Konstantinos Kamnitsas, Haiyan Xu, Zhihui Yang, Jan Verheyden, Tilak Das, Evgenios N. Kornaropoulos, Ewout Steyerberg, Andrew I.R. Maas, Kevin K.W. Wang, András Büki, Ben Glocker, David K. Menon, Virginia F.J. Newcombe
Published in: EBioMedicine, 2021, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.1016/j.ebiom.2021.103777

Failure Detection in Medical Image Classification: A Reality Check and Benchmarking Testbed

Author(s): Bernhardt, Melanie; Ribeiro, Fabio De Sousa; Glocker, Ben
Published in: Transactions on Machine Learning Research, Issue 3, 2022, ISSN 0000-0000
Publisher: JMLR
DOI: 10.48550/arxiv.2205.14094

Causality matters in medical imaging

Author(s): Daniel C. Castro, Ian Walker, Ben Glocker
Published in: Nature Communications, Issue 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-17478-w

Unpaired Multi-Modal Segmentation via Knowledge Distillation

Author(s): Qi Dou, Quande Liu, Pheng Ann Heng, Ben Glocker
Published in: IEEE Transactions on Medical Imaging, Issue 39/7, 2020, Page(s) 2415-2425, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/TMI.2019.2963882

Distributional Gaussian Processes Layers for Out-of-Distribution Detection

Author(s): Sebastian G. Popescu, David J. Sharp, James H. Cole, Konstantinos Kamnitsas, Ben Glocker
Published in: Journal of Machine Learning for Biomedical Imaging, 2022, ISSN 0000-0000
Publisher: MELBA
DOI: 10.48550/arxiv.2206.13346

Joint Optimization of Class-Specific Training- and Test-Time Data Augmentation in Segmentation

Author(s): Zeju Li; Konstantinos Kamnitsas; Qi Dou; Chen Qin; Ben Glocker
Published in: IEEE Transactions on Medical Imaging, Issue 4, 2023, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2023.3282728

Local Brain-Age: A U-Net Model

Author(s): Sebastian G. Popescu, Ben Glocker, David J. Sharp, James H. Cole
Published in: Frontiers in Aging Neuroscience, 2021, ISSN 0000-0000
Publisher: Frontiers
DOI: 10.3389/fnagi.2021.761954

The medical algorithmic audit

Author(s): Xiaoxuan Liu, Ben Glocker, Melissa M McCradden, Marzyeh Ghassemi, Alastair K Denniston, Lauren Oakden-Rayner
Published in: The Lancet Digital Health, 2022, ISSN 2352-3964
Publisher: Elsevier BV
DOI: 10.1016/s2589-7500(22)00003-6

Federated deep learning for detecting COVID-19 lung abnormalities in CT: a privacy-preserving multinational validation study

Author(s): Qi Dou, Tiffany Y. So, Meirui Jiang, Quande Liu, Varut Vardhanabhuti, Georgios Kaissis, Zeju Li, Weixin Si, Heather H. C. Lee, Kevin Yu, Zuxin Feng, Li Dong, Egon Burian, Friederike Jungmann, Rickmer Braren, Marcus Makowski, Bernhard Kainz, Daniel Rueckert, Ben Glocker, Simon C. H. Yu & Pheng Ann Heng
Published in: npj Digital Medicine, 2021, ISSN 2398-6352
Publisher: Springer
DOI: 10.1038/s41746-021-00431-6

Multiclass semantic segmentation and quantification of traumatic brain injury lesions on head CT using deep learning: an algorithm development and multicentre validation study

Author(s): Miguel Monteiro, Virginia F J Newcombe, Francois Mathieu, Krishma Adatia, Konstantinos Kamnitsas, Enzo Ferrante, Tilak Das, Daniel Whitehouse, Daniel Rueckert, David K Menon, Ben Glocker
Published in: The Lancet Digital Health, Issue 2/6, 2020, Page(s) e314-e322, ISSN 2589-7500
Publisher: Elsevier
DOI: 10.1016/s2589-7500(20)30085-6

Potential sources of dataset bias complicate investigation of underdiagnosis by machine learning algorithms

Author(s): Mélanie Bernhardt, Charles Jones, Ben Glocker
Published in: Nature Medicine, 2022, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-022-01846-8

Automated quality control in image segmentation: application to the UK Biobank cardiovascular magnetic resonance imaging study

Author(s): Robert Robinson, Vanya V. Valindria, Wenjia Bai, Ozan Oktay, Bernhard Kainz, Hideaki Suzuki, Mihir M. Sanghvi, Nay Aung, José Miguel Paiva, Filip Zemrak, Kenneth Fung, Elena Lukaschuk, Aaron M. Lee, Valentina Carapella, Young Jin Kim, Stefan K. Piechnik, Stefan Neubauer, Steffen E. Petersen, Chris Page, Paul M. Matthews, Daniel Rueckert, Ben Glocker
Published in: Journal of Cardiovascular Magnetic Resonance, Issue 21/1, 2019, ISSN 1532-429X
Publisher: Springer Nature
DOI: 10.1186/s12968-019-0523-x

Quantitative error prediction of medical image registration using regression forests

Author(s): Hessam Sokooti, Gorkem Saygili, Ben Glocker, Boudewijn P.F. Lelieveldt, Marius Staring
Published in: Medical Image Analysis, Issue 56, 2019, Page(s) 110-121, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2019.05.005

PnP-AdaNet: Plug-and-Play Adversarial Domain Adaptation Network at Unpaired Cross-Modality Cardiac Segmentation

Author(s): Qi Dou, Cheng Ouyang, Cheng Chen, Hao Chen, Ben Glocker, Xiahai Zhuang, Pheng-Ann Heng
Published in: IEEE Access, Issue 7, 2019, Page(s) 99065-99076, ISSN 2169-3536
Publisher: Institute of Electrical and Electronics Engineers Inc.
DOI: 10.1109/access.2019.2929258

Federated learning enables big data for rare cancer boundary detection

Author(s): Sarthak Pati; Ujjwal Baid; Brandon Edwards; Micah Sheller; Shih-Han Wang; G. Anthony Reina; Patrick Foley; Alexey Gruzdev; Deepthi Karkada; Christos Davatzikos; Chiharu Sako; Satyam Ghodasara; Michel Bilello; Suyash Mohan; Philipp Vollmuth; Gianluca Brugnara; Chandrakanth J. Preetha; Felix Sahm; Klaus Maier-Hein; Maximilian Zenk; Martin Bendszus; Wolfgang Wick; Evan Calabrese; Jeffrey Rudie; Javie
Published in: Nature Communications, 13(1):7346. Nature Publishing Group, Issue 16, 2022, ISSN 0000-0000
Publisher: Springer Nature
DOI: 10.1038/s41467-022-33407-5

Risk of Bias in Chest Radiography Deep Learning Foundation Models

Author(s): Ben Glocker; Charles Jones; Mélanie Roschewitz; Stefan Winzeck
Published in: Radiology: Artificial Intelligence, Issue 4, 2023, ISSN 2638-6100
Publisher: RSNA
DOI: 10.1148/ryai.230060

Context Label Learning: Improving Background Class Representations in Semantic Segmentation

Author(s): Zeju Li; Konstantinos Kamnitsas; Cheng Ouyang; Chen Chen; Ben Glocker
Published in: IEEE Transactions on Medical Imaging, Issue 11, 2023, ISSN 0000-0000
Publisher: IEEE
DOI: 10.1109/tmi.2023.3242838

Improving RetinaNet for CT Lesion Detection with Dense Masks from Weak RECIST Labels

Author(s): Martin Zlocha, Qi Dou, Ben Glocker
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2019 - 22nd International Conference, Shenzhen, China, October 13–17, 2019, Proceedings, Part VI, Issue 11769, 2019, Page(s) 402-410, ISBN 978-3-030-32225-0
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-32226-7_45

Is texture predictive for age and sex in brain MRI?

Author(s): Pawlowski, Nick; Glocker, Ben
Published in: International Conference on Medical Imaging with Deep Learning (MIDL), 2019
Publisher: MIDL

Frequency Dropout: Feature-Level Regularization via Randomized Filtering

Author(s): Mobarakol Islam; Ben Glocker
Published in: Lecture Notes in Computer Science ISBN: 9783031250651, Issue 6, 2023, ISBN 9783031250651
Publisher: Springer
DOI: 10.1007/978-3-031-25066-8_14

Stochastic segmentation networks: modelling spatially correlated aleatoric uncertainty

Author(s): Monteiro, Miguel; Folgoc, Loïc Le; de Castro, Daniel Coelho; Pawlowski, Nick; Marques, Bernardo; Kamnitsas, Konstantinos; van der Wilk, Mark; Glocker, Ben
Published in: Advances in Neural Information Processing Systems 33 (NeurIPS 2020), 2020
Publisher: NeurIPS

Domain generalization via model-agnostic learning of semantic features

Author(s): Dou, Qi; Castro, Daniel C.; Kamnitsas, Konstantinos; Glocker, Ben
Published in: Advances in Neural Information Processing Systems 32 (NeurIPS 2019), 2019
Publisher: NeurIPS

Overfitting of Neural Nets Under Class Imbalance: Analysis and Improvements for Segmentation

Author(s): Zeju Li, Konstantinos Kamnitsas, Ben Glocker
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2019 - 22nd International Conference, Shenzhen, China, October 13–17, 2019, Proceedings, Part III, Issue 11766, 2019, Page(s) 402-410, ISBN 978-3-030-32247-2
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-32248-9_45

Deep Structural Causal Shape Models

Author(s): Rasal, Rajat; Castro, Daniel C.; Pawlowski, Nick; Glocker, Ben
Published in: Lecture Notes in Computer Science ISBN: 9783031250743, Issue 10, 2022
Publisher: Springer
DOI: 10.1007/978-3-031-25075-0_28

Spatially Varying Label Smoothing: Capturing Uncertainty from Expert Annotations

Author(s): Mobarakol Islam; Ben Glocker
Published in: Information Processing in Medical Imaging (IPMI) 2021, Issue 11, 2021
Publisher: Springer
DOI: 10.1007/978-3-030-78191-0_52

High Fidelity Image Counterfactuals with Probabilistic Causal Models

Author(s): Ribeiro, Fabio De Sousa; Xia, Tian; Monteiro, Miguel; Pawlowski, Nick; Glocker, Ben
Published in: International Conference on Machine Learning, Issue 4, 2023
Publisher: ICML
DOI: 10.48550/arxiv.2306.15764

TBI Lesion Segmentation in Head CT: Impact of Preprocessing and Data Augmentation

Author(s): Miguel Monteiro, Konstantinos Kamnitsas, Enzo Ferrante, Francois Mathieu, Steven McDonagh, Sam Cook, Susan Stevenson, Tilak Das, Aneesh Khetani, Tom Newman, Fred Zeiler, Richard Digby, Jonathan P. Coles, Daniel Rueckert, David K. Menon, Virginia F. J. Newcombe, Ben Glocker
Published in: Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries - 5th International Workshop, BrainLes 2019, Held in Conjunction with MICCAI 2019, Shenzhen, China, October 17, 2019, Revised Selected Papers, Part I, Issue 11992, 2020, Page(s) 13-22, ISBN 978-3-030-46639-8
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-46640-4_2

Nonparametric Density Flows for MRI Intensity Normalisation

Author(s): Daniel C. Castro, Ben Glocker
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2018 - 21st International Conference, Granada, Spain, September 16-20, 2018, Proceedings, Part I, Issue 11070, 2018, Page(s) 206-214, ISBN 978-3-030-00927-4
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-00928-1_24

Domain Adaptation for MRI Organ Segmentation using Reverse Classification Accuracy

Author(s): Vanya V. Valindria, Ioannis Lavdas, Wenjia Bai, Konstantinos Kamnitsas, Eric O. Aboagye, Andrea G. Rockall, Daniel Rueckert, Ben Glocker
Published in: International Conference on Medical Imaging with Deep Learning (MIDL), 2018
Publisher: MIDL

Real-Time Prediction of Segmentation Quality

Author(s): Robert Robinson, Ozan Oktay, Wenjia Bai, Vanya V. Valindria, Mihir M. Sanghvi, Nay Aung, José M. Paiva, Filip Zemrak, Kenneth Fung, Elena Lukaschuk, Aaron M. Lee, Valentina Carapella, Young Jin Kim, Bernhard Kainz, Stefan K. Piechnik, Stefan Neubauer, Steffen E. Petersen, Chris Page, Daniel Rueckert, Ben Glocker
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2018 - 21st International Conference, Granada, Spain, September 16-20, 2018, Proceedings, Part IV, Issue 11073, 2018, Page(s) 578-585, ISBN 978-3-030-00936-6
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-00937-3_66

NeuroNet: Fast and Robust Reproduction of Multiple Brain Image Segmentation Pipelines

Author(s): Martin Rajchl, Nick Pawlowski, Daniel Rueckert, Paul M. Matthews, Ben Glocker
Published in: International Conference on Medical Imaging with Deep Learning (MIDL), 2018
Publisher: MIDL

Semi-Supervised Learning via Compact Latent Space Clustering

Author(s): Konstantinos Kamnitsas, Daniel C. Castro, Loic Le Folgoc, Ian Walker, Ryutaro Tanno, Daniel Rueckert, Ben Glocker, Antonio Criminisi, Aditya Nori
Published in: Proceedings of the 35th International Conference on Machine Learning, Issue 80, 2018, Page(s) 2464-2473
Publisher: PMLR

Small Organ Segmentation in Whole-Body MRI Using a Two-Stage FCN and Weighting Schemes

Author(s): Vanya V. Valindria, Ioannis Lavdas, Juan Cerrolaza, Eric O. Aboagye, Andrea G. Rockall, Daniel Rueckert, Ben Glocker
Published in: Machine Learning in Medical Imaging - 9th International Workshop, MLMI 2018, Held in Conjunction with MICCAI 2018, Granada, Spain, September 16, 2018, Proceedings, Issue 11046, 2018, Page(s) 346-354, ISBN 978-3-030-00918-2
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-00919-9_40

Towards continual learning in medical imaging

Author(s): Chaitanya Baweja, Ben Glocker, Konstantinos Kamnitsas
Published in: Workshop Medical Imaging meets NeurIPS, 2018
Publisher: Workshop Medical Imaging meets NeurIPS

Controlling Meshes via Curvature: Spin Transformations for Pose-Invariant Shape Processing

Author(s): Loïc Le Folgoc, Daniel C. Castro, Jeremy Tan, Bishesh Khanal, Konstantinos Kamnitsas, Ian Walker, Amir Alansary, Ben Glocker
Published in: Information Processing in Medical Imaging - 26th International Conference, IPMI 2019, Hong Kong, China, June 2–7, 2019, Proceedings, Issue 11492, 2019, Page(s) 221-234, ISBN 978-3-030-20350-4
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-20351-1_17

Graph Convolutional Gaussian Processes

Author(s): Ian Walker, Ben Glocker
Published in: Proceedings of the 36th International Conference on Machine Learning, Issue 97, 2019, Page(s) 6495-6504
Publisher: PMLR

Estimating Model Performance Under Domain Shifts with Class-Specific Confidence Scores

Author(s): Li, Z; Kamnitsas, K; Islam, M; Chen, C; Glocker, B
Published in: International Conference on Medical Image Computing and Computer Assisted Intervention, Issue 8, 2022
Publisher: Springer
DOI: 10.1007/978-3-031-16449-1_66

Class-Distribution-Aware Calibration for Long-Tailed Visual Recognition

Author(s): Islam, M; Seenivasan, L; Ren, H; Glocker, B
Published in: ICML Workshop on Uncertainty and Robustness in Deep Learning, Issue 7, 2021
Publisher: None
DOI: 10.48550/arxiv.2109.05263

Deep Structural Causal Models for Tractable Counterfactual Inference

Author(s): Pawlowski, N; Castro, DC; Glocker, B
Published in: Advances in Neural Information Processing Systems 33 (NeurIPS 2020), 2020
Publisher: NeurIPS

Measuring axiomatic soundness of counterfactual image models

Author(s): Monteiro, Miguel; Ribeiro, Fabio De Sousa; Pawlowski, Nick; Castro, Daniel C.; Glocker, Ben
Published in: International Conference on Learning Representations (ICLR), Issue 2, 2023
Publisher: ICLR
DOI: 10.48550/arxiv.2303.01274

Confidence-based Out-of-Distribution Detection: A Comparative Study and Analysis

Author(s): Christoph Berger, Magdalini Paschali, Ben Glocker, Konstantinos Kamnitsas
Published in: International Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging, 2021
Publisher: Springer
DOI: 10.48550/arxiv.2107.02568

Learning from Partially Overlapping Labels: Image Segmentation under Annotation Shift

Author(s): Filbrandt, Gregory; Kamnitsas, Konstantinos; Bernstein, David; Taylor, Alexandra; Glocker, Ben
Published in: Issue 7, 2021
Publisher: Springer
DOI: 10.48550/arxiv.2107.05938

Machine Learning with Multi-Site Imaging Data: An Empirical Study on the Impact of Scanner Effects

Author(s): Glocker, B; Robinson, R; Castro, DC; Dou, Q; Konukoglu, E
Published in: Workshop Medical Imaging meets NeurIPS, 2019
Publisher: Medical Imaging meets NeurIPS

Robustness Stress Testing in Medical Image Classification

Author(s): Islam, Mobarakol; Li, Zeju; Glocker, Ben
Published in: Uncertainty for Safe Utilization of Machine Learning in Medical Imaging ISBN: 9783031443350, Issue 4, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-44336-7_17

Image-Level Harmonization of Multi-site Data Using Image-and-Spatial Transformer Networks

Author(s): Robert Robinson, Qi Dou, Daniel Coelho de Castro, Konstantinos Kamnitsas, Marius de Groot, Ronald M. Summers, Daniel Rueckert, Ben Glocker
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2020 - 23rd International Conference, Lima, Peru, October 4–8, 2020, Proceedings, Part VII, Issue 12267, 2020, Page(s) 710-719, ISBN 978-3-030-59727-6
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-59728-3_69

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