Stefan Klein - RankMe

176 papers B 19Journal 89Unranked 67

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	An interpretable machine learning framework with data-informed imaging biomarkers for diagnosis and prediction of Alzheimer's disease. Comput. Medical Imaging Graph. Wenjie Kang, Bo Li, Lize C. Jiskoot, Peter Paul De Deyn, Geert Jan Biessels, Huiberdina L. Koek, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Wiesje M. van der Flier, Willemijn Jansen, Stefan Klein, Esther E. Bron
2026	J	`jnl`	The 4D Human Embryonic Brain Atlas: Spatiotemporal atlas generation for rapid anatomical changes. Comput. Medical Imaging Graph. Wietske A. P. Bastiaansen, Melek Rousian, Anton H. J. Koning, Wiro J. Niessen, Bernadette S. De Bakker, Régine P. M. Steegers-Theunissen, Stefan Klein
2025	J	`jnl`	Evaluating Open-Weight Large Language Models for Structured Data Extraction from Narrative Medical Reports Across Multiple Use Cases and Languages. CoRR Douwe J. Spaanderman, Karthik Prathaban, Petr Zelina, Kaouther Mouheb, Lukás Hejtmánek, Matthew Marzetti, Antonius W. Schurink, Damian Chan, Ruben Niemantsverdriet, Frederik Hartmann, Zhen Qian, Maarten G. Thomeer, Petr Holub, Farhan Akram, Frank J. Wolters, Meike W. Vernooij, Cornelis Verhoef, Esther E. Bron, Vít Novácek, Dirk J. Grünhagen, Wiro J. Niessen, Martijn P. A. Starmans, Stefan Klein
2025	—	`conf`	Evaluation of Monte Carlo Dropout for Uncertainty Quantification in Multi-task Deep Learning-Based Glioma Subtyping. UNSURE@MICCAI Gonzalo Esteban Mosquera Rojas, Sebastian R. van der Voort, Carolin M. Pirkl, Sandeep Kaushik, Marion Smits, Stefan Klein
2025	—	`conf`	Federated Fine-Tuning of SAM-Med3D for MRI-Based Dementia Classification. BRIDGE/DeCaF@MICCAI Kaouther Mouheb, Marawan Elbatel, Janne M. Papma, Geert Jan Biessels, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Barbara van Munster, Wiesje M. van der Flier, Inez H. G. B. Ramakers, Stefan Klein, Esther E. Bron
2025	J	`jnl`	Federated Fine-tuning of SAM-Med3D for MRI-based Dementia Classification. CoRR Kaouther Mouheb, Marawan Elbatel, Janne M. Papma, Geert Jan Biessels, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Barbara van Munster, Wiesje M. van der Flier, Inez H. G. B. Ramakers, Stefan Klein, Esther E. Bron
2025	J	`jnl`	Freehand Ultrafast Doppler Ultrasound Imaging With Optical Tracking Allows for Detailed 3D Reconstruction of Blood Flow in the Human Brain. IEEE Trans. Medical Imaging Luuk Verhoef, Sadaf Soloukey, Frits Mastik, Bastian S. Generowicz, Eelke M. Bos, Joost W. Schouten, Sebastiaan K. E. Koekkoek, Arnaud J. P. E. Vincent, Stefan Klein, Pieter Kruizinga
2025	—	`conf`	From Reports to Relations: Large Language Models for Knowledge Graph Extraction in Digital Pathology. ELAMI@MICCAI Karthik Prathaban, Farhan Akram, Stefan Klein, Martijn P. A. Starmans
2025	—	`conf`	GL-ICNN: An End-To-End Interpretable Convolutional Neural Network for the Diagnosis and Prediction of Alzheimer's Disease. ISBI Wenjie Kang, Lize C. Jiskoot, Peter Paul De Deyn, Geert Jan Biessels, Huiberdina Koek, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Wiesje M. van der Flier, Willemijn Jansen, Stefan Klein, Esther Bron
2025	J	`jnl`	GL-ICNN: An End-To-End Interpretable Convolutional Neural Network for the Diagnosis and Prediction of Alzheimer's Disease. CoRR Wenjie Kang, Lize C. Jiskoot, Peter Paul De Deyn, Geert Jan Biessels, Huiberdina Koek, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Wiesje M. van der Flier, Willemijn Jansen, Stefan Klein, Esther Bron
2025	J	`jnl`	Recurrent inference machine for medical image registration. Medical Image Anal. Yi Zhang, Yidong Zhao, Hui Xue, Peter Kellman, Stefan Klein, Qian Tao
2025	—	`conf`	Robust Alignment of the Human Embryo in 3D Ultrasound Using PCA and an Ensemble of Heuristic, Atlas-Based and Learning-Based Classifiers Evaluated on the Rotterdam Periconceptional Cohort. PIPPI@MICCAI Nikolai Herrmann, Marcella C. Zijta, Stefan Klein, Régine P. M. Steegers-Theunissen, Rene M. H. Wijnen, Bernadette S. De Bakker, Melek Rousian, Wietske A. P. Bastiaansen
2025	J	`jnl`	Robust Alignment of the Human Embryo in 3D Ultrasound using PCA and an Ensemble of Heuristic, Atlas-based and Learning-based Classifiers Evaluated on the Rotterdam Periconceptional Cohort. CoRR Nikolai Herrmann, Marcella C. Zijta, Stefan Klein, Régine P. M. Steegers-Theunissen, Rene M. H. Wijnen, Bernadette S. De Bakker, Melek Rousian, Wietske A. P. Bastiaansen
2025	J	`jnl`	Self-Supervised Weighted Image Guided Quantitative MRI Super-Resolution. CoRR Alireza Samadifardheris, Dirk H. J. Poot, Florian Wiesinger, Stefan Klein, Juan Antonio Hernández Tamames
2025	J	`jnl`	The 4D Human Embryonic Brain Atlas: spatiotemporal atlas generation for rapid anatomical changes using first-trimester ultrasound from the Rotterdam Periconceptional Cohort. CoRR Wietske A. P. Bastiaansen, Melek Rousian, Anton H. J. Koning, Wiro J. Niessen, Bernadette de Bakker, Régine P. M. Steegers-Theunissen, Stefan Klein
2025	J	`jnl`	q3-MuPa: Quick, Quiet, Quantitative Multi-Parametric MRI using Physics-Informed Diffusion Models. CoRR Shishuai Wang, Florian Wiesinger, Noemi Sgambelluri, Carolin M. Pirkl, Stefan Klein, Juan Antonio Hernández Tamames, Dirk H. J. Poot
2024	J	`jnl`	AI in radiological imaging of soft-tissue and bone tumours: a systematic review evaluating against CLAIM and FUTURE-AI guidelines. CoRR Douwe J. Spaanderman, Matthew Marzetti, Xinyi Wan, Andrew F. Scarsbrook, Philip Robinson, Edwin H. G. Oei, Jacob J. Visser, Robert Hemke, Kirsten van Langevelde, David F. Hanff, Geert J. L. H. van Leenders, Cornelis Verhoef, Dirk J. Gruühagen, Wiro J. Niessen, Stefan Klein, Martijn P. A. Starmans
2024	J	`jnl`	CMAN: Cascaded Multi-scale Spatial Channel Attention-guided Network for large 3D deformable registration of liver CT images. Medical Image Anal. Xuan Loc Pham, Ha Manh Luu, Theo van Walsum, Hong Son Mai, Stefan Klein, Ngoc Ha Le, Trinh Chu Duc
2024	—	`conf`	Evaluating the Fairness of Neural Collapse in Medical Image Classification. MICCAI (10) Kaouther Mouheb, Marawan Elbatel, Stefan Klein, Esther E. Bron
2024	J	`jnl`	Evaluating the Fairness of Neural Collapse in Medical Image Classification. CoRR Kaouther Mouheb, Marawan Elbatel, Stefan Klein, Esther E. Bron
2024	J	`jnl`	Evaluating the Predictive Value of Glioma Growth Models for Low-Grade Glioma After Tumor Resection. IEEE Trans. Medical Imaging Karin A. van Garderen, Sebastian R. van der Voort, Maarten M. J. Wijnenga, Fatih Incekara, Ahmad Alafandi, Georgios Kapsas, Renske Gahrmann, Joost W. Schouten, Hendrikus J. Dubbink, Arnaud J. P. E. Vincent, Martin J. van den Bent, Pim J. French, Marion Smits, Stefan Klein
2024	J	`jnl`	Minimally Interactive Segmentation of Soft-Tissue Tumors on CT and MRI using Deep Learning. CoRR Douwe J. Spaanderman, Martijn P. A. Starmans, Gonnie C. M. van Erp, David F. Hanff, Judith H. Sluijter, Anne-Rose W. Schut, Geert J. L. H. van Leenders, Cornelis Verhoef, Dirk J. Grünhagen, Wiro J. Niessen, Jacob J. Visser, Stefan Klein
2024	J	`jnl`	Recurrent Inference Machine for Medical Image Registration. CoRR Yi Zhang, Yidong Zhao, Hui Xue, Peter Kellman, Stefan Klein, Qian Tao
2024	—	`conf`	Semi-supervised Three-Dimensional Detection of Congenital Brain Anomalies in First Trimester Ultrasound. PIPPI@MICCAI Marcella C. Zijta, Wietske A. P. Bastiaansen, Rene M. H. Wijnen, Régine P. M. Steegers-Theunissen, Bernadette de Bakker, Melek Rousian, Stefan Klein
2024	—	`conf`	qMRI Diffuser: Quantitative T1 Mapping of the Brain Using a Denoising Diffusion Probabilistic Model. DGM4MICCAI@MICCAI Shishuai Wang, Hua Ma, Juan Antonio Hernández Tamames, Stefan Klein, Dirk H. J. Poot
2024	J	`jnl`	qMRI Diffusor: Quantitative T1 Mapping of the Brain using a Denoising Diffusion Probabilistic Model. CoRR Shishuai Wang, Hua Ma, Juan Antonio Hernández Tamames, Stefan Klein, Dirk H. J. Poot
2023	—	`conf`	An Interpretable Machine Learning Model with Deep Learning-Based Imaging Biomarkers for Diagnosis of Alzheimer's Disease. ISIC/Care-AI/MedAGI/DeCaF@MICCAI Wenjie Kang, Bo Li, Janne M. Papma, Lize C. Jiskoot, Peter Paul De Deyn, Geert Jan Biessels, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Wiesje M. van der Flier, Inez H. G. B. Ramakers, Stefan Klein, Esther E. Bron
2023	J	`jnl`	An Interpretable Machine Learning Model with Deep Learning-based Imaging Biomarkers for Diagnosis of Alzheimer's Disease. CoRR Wenjie Kang, Bo Li, Janne M. Papma, Lize C. Jiskoot, Peter Paul De Deyn, Geert Jan Biessels, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Wiesje M. van der Flier, Inez H. G. B. Ramakers, Stefan Klein, Esther E. Bron
2023	J	`jnl`	Comparison of different retinal regions-of-interest imaged by OCT for the classification of intermediate AMD. CoRR Danilo Andrade De Jesus, Eric F. Thee, Tim Doekemeijer, Daniel T. Luttikhuizen, Caroline Klaver, Stefan Klein, Theo van Walsum, Hans Vingerling, Luisa Sánchez
2023	J	`jnl`	Data synthesis and adversarial networks: A review and meta-analysis in cancer imaging. Medical Image Anal. Richard Osuala, Kaisar Kushibar, Lidia Garrucho, Akis Linardos, Zuzanna Szafranowska, Stefan Klein, Ben Glocker, Oliver Díaz, Karim Lekadir
2023	J	`jnl`	Retinal OCT speckle as a biomarker for glaucoma diagnosis and staging. Comput. Medical Imaging Graph. Pedro G. Vaz, Luisa Sánchez Brea, Vania Bastos Silva, Jan Van Eijgen, Ingeborg Stalmans, João Cardoso, Theo van Walsum, Stefan Klein, João Barbosa Breda, Danilo Andrade De Jesus
2023	J	`jnl`	dtiRIM: A generalisable deep learning method for diffusion tensor imaging. NeuroImage Emanoel R. Sabidussi, Stefan Klein, Ben Jeurissen, Dirk H. J. Poot
2023	—	`conf`	itk-elastix: Medical image registration in Python. SciPy Konstantinos Ntatsis, Niels Dekker, Viktor van der Valk, Tom Birdsong, Dzenan Zukic, Stefan Klein, Marius Staring, Matthew McCormick
2022	J	`jnl`	Automatic Segmentation of the Optic Nerve Head Region in Optical Coherence Tomography: A Methodological Review. Comput. Methods Programs Biomed. Rita Marques, Danilo Andrade De Jesus, João Barbosa Breda, Jan Van Eijgen, Ingeborg Stalmans, Theo van Walsum, Stefan Klein, Pedro G. Vaz, Luisa Sánchez Brea
2022	J	`jnl`	Computer-aided diagnosis and prediction in brain disorders. CoRR Vikram Venkatraghavan, Sebastian R. van der Voort, Daniel Bos, Marion Smits, Frederik Barkhof, Wiro J. Niessen, Stefan Klein, Esther E. Bron
2022	J	`jnl`	Differential Diagnosis and Molecular Stratification of Gastrointestinal Stromal Tumors on CT Images Using a Radiomics Approach. J. Digit. Imaging Martijn P. A. Starmans, Milea J. M. Timbergen, Melissa Vos, Michel Renckens, Dirk J. Grünhagen, Geert J. L. H. van Leenders, Roy S. Dwarkasing, François E. J. A. Willemssen, Wiro J. Niessen, Cornelis Verhoef, Stefan Sleijfer, Jacob J. Visser, Stefan Klein
2022	B	`conf`	Motion correction in retinal optical coherence tomography imaging using deep learning registration. Image Processing Konstantinos Ntatsis, Luisa Sánchez Brea, Danilo Andrade De Jesus, João Barbosa Breda, Theo van Walsum, Edwin Bennink, Stefan Klein
2022	J	`jnl`	Multi-Atlas Segmentation and Spatial Alignment of the Human Embryo in First Trimester 3D Ultrasound. CoRR Wietske A. P. Bastiaansen, Melek Rousian, Régine P. M. Steegers-Theunissen, Wiro J. Niessen, Anton H. J. Koning, Stefan Klein
2022	J	`jnl`	Ten years of image analysis and machine learning competitions in dementia. NeuroImage Esther E. Bron, Stefan Klein, Annika Reinke, Janne M. Papma, Lena Maier-Hein, Daniel C. Alexander, Neil P. Oxtoby
2022	J	`jnl`	Time efficiency analysis for undersampled quantitative MRI acquisitions. Medical Image Anal. Riwaj Byanju, Stefan Klein, Alexandra Cristobal-Huerta, Juan Antonio Hernández Tamames, Dirk H. J. Poot
2022	—	`conf`	Towards a 4D Spatio-Temporal Atlas of the Embryonic and Fetal Brain Using a Deep Learning Approach for Groupwise Image Registration. WBIR Wietske A. P. Bastiaansen, Melek Rousian, Régine P. M. Steegers-Theunissen, Wiro J. Niessen, Anton H. J. Koning, Stefan Klein
2021	J	`jnl`	A Review of Generative Adversarial Networks in Cancer Imaging: New Applications, New Solutions. CoRR Richard Osuala, Kaisar Kushibar, Lidia Garrucho, Akis Linardos, Zuzanna Szafranowska, Stefan Klein, Ben Glocker, Oliver Díaz, Karim Lekadir
2021	J	`jnl`	Analyzing the effect of NeuroImage Vikram Venkatraghavan, Stefan Klein, Lana Fani, Leontine S. Ham, Henri A. Vrooman, M. Kamran Ikram, Wiro J. Niessen, Esther E. Bron
2021	J	`jnl`	Automatic Segmentation of the Optic Nerve Head Region in Optical Coherence Tomography: A Methodological Review. CoRR Rita Marques, Danilo Andrade De Jesus, João Barbosa Breda, Jan Van Eijgen, Ingeborg Stalmans, Theo van Walsum, Stefan Klein, Pedro G. Vaz, Luisa Sánchez Brea
2021	J	`jnl`	DeepDicomSort: An Automatic Sorting Algorithm for Brain Magnetic Resonance Imaging Data. Neuroinformatics Sebastian R. van der Voort, Marion Smits, Stefan Klein
2021	J	`jnl`	Differences Between MR Brain Region Segmentation Methods: Impact on Single-Subject Analysis. Frontiers Big Data Wyke Huizinga, Dirk H. J. Poot, Elisabeth J. Vinke, F. Wenzel, Esther Bron, N. Toussaint, Christian Ledig, Henri A. Vrooman, Mohammad Arfan Ikram, Wiro J. Niessen, Meike W. Vernooij, Stefan Klein
2021	—	`conf`	Evaluating Glioma Growth Predictions as a Forward Ranking Problem. BrainLes@MICCAI (1) Karin A. van Garderen, Sebastian R. van der Voort, Maarten M. J. Wijnenga, Fatih Incekara, Georgios Kapsas, Renske Gahrmann, Ahmad Alafandi, Marion Smits, Stefan Klein
2021	J	`jnl`	Evaluating glioma growth predictions as a forward ranking problem. CoRR Karin A. van Garderen, Sebastian R. van der Voort, Maarten M. J. Wijnenga, Fatih Incekara, Georgios Kapsas, Renske Gahrmann, Ahmad Alafandi, Marion Smits, Stefan Klein
2021	B	`conf`	Learning unbiased group-wise registration (LUGR) and joint segmentation: evaluation on longitudinal diffusion MRI. Image Processing Bo Li, Wiro J. Niessen, Stefan Klein, Mohammad Arfan Ikram, Meike W. Vernooij, Esther E. Bron
2021	J	`jnl`	Longitudinal diffusion MRI analysis using Segis-Net: A single-step deep-learning framework for simultaneous segmentation and registration. NeuroImage Bo Li, Wiro J. Niessen, Stefan Klein, Marius de Groot, Mohammad Arfan Ikram, Meike W. Vernooij, Esther E. Bron
2021	J	`jnl`	Progression along data-driven disease timelines is predictive of Alzheimer's disease in a population-based cohort. NeuroImage Vikram Venkatraghavan, Elisabeth J. Vinke, Esther E. Bron, Wiro J. Niessen, Mohammad Arfan Ikram, Stefan Klein, Meike W. Vernooij
2021	J	`jnl`	Recurrent Inference Machines as inverse problem solvers for MR relaxometry. CoRR Emanoel R. Sabidussi, Stefan Klein, Matthan W. A. Caan, Shabab Bazrafkan, Arnold J. den Dekker, Jan Sijbers, Wiro J. Niessen, Dirk H. J. Poot
2021	J	`jnl`	Recurrent inference machines as inverse problem solvers for MR relaxometry. Medical Image Anal. Emanoel R. Sabidussi, Stefan Klein, Matthan W. A. Caan, Shabab Bazrafkan, Arnold J. den Dekker, Jan Sijbers, Wiro J. Niessen, Dirk H. J. Poot
2021	J	`jnl`	Reproducible radiomics through automated machine learning validated on twelve clinical applications. CoRR Martijn P. A. Starmans, Sebastian R. van der Voort, Thomas Phil, Milea J. M. Timbergen, Melissa Vos, Guillaume A. Padmos, Wouter Kessels, David Hanff, Dirk J. Grünhagen, Cornelis Verhoef, Stefan Sleijfer, Martin J. van den Bent, Marion Smits, Roy S. Dwarkasing, Christopher J. Els, Federico Fiduzi, Geert J. L. H. van Leenders, Anela Blazevic, Johannes Hofland, Tessa Brabander, Renza A. H. van Gils, Gaston J. H. Franssen, Richard A. Feelders, Wouter W. de Herder, Florian E. Buisman, François E. J. A. Willemssen, Bas Groot Koerkamp, Lindsay Angus, Astrid A. M. van der Veldt, Ana Rajicic, Arlette E. Odink, Mitchell Deen, Jose M. Castillo T, Jifke F. Veenland, Ivo Schoots, Michel Renckens, Michail Doukas, Rob A. de Man, Jan N. M. IJzermans, Razvan L. Miclea, Peter B. Vermeulen, Esther E. Bron, Maarten G. Thomeer, Jacob J. Visser, Wiro J. Niessen, Stefan Klein
2021	J	`jnl`	Ten years of image analysis and machine learning competitions in dementia. CoRR Esther E. Bron, Stefan Klein, Annika Reinke, Janne M. Papma, Lena Maier-Hein, Daniel C. Alexander, Neil P. Oxtoby
2021	—	`conf`	The Effect of Preprocessing on Convolutional Neural Networks for Medical Image Segmentation. ISBI K. B. de Raad, Karin A. van Garderen, Marion Smits, Sebastian R. van der Voort, Fatih Incekara, Edwin H. G. Oei, Jukka Hirvasniemi, Stefan Klein, Martijn P. A. Starmans
2020	J	`jnl`	An Efficient Method for Multi-Parameter Mapping in Quantitative MRI Using B-Spline Interpolation. IEEE Trans. Medical Imaging Willem van Valenberg, Stefan Klein, Frans M. Vos, Kirsten Koolstra, Lucas J. van Vliet, Dirk H. J. Poot
2020	J	`jnl`	Analyzing the effect of APOE on Alzheimer's disease progression using an event-based model for stratified populations. CoRR Vikram Venkatraghavan, Stefan Klein, Lana Fani, Leontine S. Ham, Henri A. Vrooman, M. Kamran Ikram, Wiro J. Niessen, Esther E. Bron
2020	—	`conf`	Atlas-Based Segmentation of the Human Embryo Using Deep Learning with Minimal Supervision. ASMUS/PIPPI@MICCAI Wietske A. P. Bastiaansen, Melek Rousian, Régine P. M. Steegers-Theunissen, Wiro J. Niessen, Anton H. J. Koning, Stefan Klein
2020	—	`conf`	Automatic quantification of hip osteoarthritis from low-quality x-ray images. Biomedical Applications in Molecular, Structural, and Functional Imaging Giancarlos Gutiérrez Cervantes, Eveling Castro Gutierrez, Javier Delgado Obando, Victor Paúl Pauca, Stefan Klein, Hans Lamecker
2020	J	`jnl`	Cross-Cohort Generalizability of Deep and Conventional Machine Learning for MRI-based Diagnosis and Prediction of Alzheimer's Disease. CoRR Esther E. Bron, Stefan Klein, Janne M. Papma, Lize C. Jiskoot, Vikram Venkatraghavan, Jara Linders, Pauline Aalten, Peter Paul De Deyn, Geert Jan Biessels, Jurgen A. H. R. Claassen, Huub A. M. Middelkoop, Marion Smits, Wiro J. Niessen, John van Swieten, Wiesje M. van der Flier, Inez H. G. B. Ramakers, Aad van der Lugt
2020	—	`conf`	Deep learning-based retinal vessel segmentation with cross-modal evaluation. MIDL Luisa Sánchez Brea, Danilo Andrade De Jesus, Stefan Klein, Theo van Walsum
2020	J	`jnl`	Differential diagnosis and molecular stratification of gastrointestinal stromal tumors on CT images using a radiomics approach. CoRR Martijn P. A. Starmans, Milea J. M. Timbergen, Melissa Vos, Michel Renckens, Dirk J. Grünhagen, Geert J. L. H. van Leenders, Roy S. Dwarkasing, François E. J. A. Willemssen, Wiro J. Niessen, Cornelis Verhoef, Stefan Sleijfer, Jacob J. Visser, Stefan Klein
2020	J	`jnl`	Learning unbiased registration and joint segmentation: evaluation on longitudinal diffusion MRI. CoRR Bo Li, Wiro J. Niessen, Stefan Klein, Mohammad Arfan Ikram, Meike W. Vernooij, Esther E. Bron
2020	J	`jnl`	Longitudinal diffusion MRI analysis using Segis-Net: a single-step deep-learning framework for simultaneous segmentation and registration. CoRR Bo Li, Wiro J. Niessen, Stefan Klein, Marius de Groot, Mohammad Arfan Ikram, Meike W. Vernooij, Esther E. Bron
2020	—	`conf`	Towards Segmentation and Spatial Alignment of the Human Embryonic Brain Using Deep Learning for Atlas-Based Registration. WBIR Wietske A. P. Bastiaansen, Melek Rousian, Régine P. M. Steegers-Theunissen, Wiro J. Niessen, Anton H. J. Koning, Stefan Klein
2020	J	`jnl`	Towards segmentation and spatial alignment of the human embryonic brain using deep learning for atlas-based registration. CoRR Wietske A. P. Bastiaansen, Melek Rousian, Régine P. M. Steegers-Theunissen, Wiro J. Niessen, Anton H. J. Koning, Stefan Klein
2020	J	`jnl`	WHO 2016 subtyping and automated segmentation of glioma using multi-task deep learning. CoRR Sebastian R. van der Voort, Fatih Incekara, Maarten M. J. Wijnenga, Georgios Kapsas, Renske Gahrmann, Joost W. Schouten, Rishi Nandoe Tewarie, Geert J. Lycklama, Philip C. de Witt Hamer, Roelant S. Eijgelaar, Pim J. French, Hendrikus J. Dubbink, Arnaud J. P. E. Vincent, Wiro J. Niessen, Martin J. van den Bent, Marion Smits, Stefan Klein
2019	—	`conf`	A Hybrid Deep Learning Framework for Integrated Segmentation and Registration: Evaluation on Longitudinal White Matter Tract Changes. MICCAI (3) Bo Li, Wiro J. Niessen, Stefan Klein, Marius de Groot, Mohammad Arfan Ikram, Meike W. Vernooij, Esther E. Bron
2019	J	`jnl`	A hybrid deep learning framework for integrated segmentation and registration: evaluation on longitudinal white matter tract changes. CoRR Bo Li, Wiro J. Niessen, Stefan Klein, Marius de Groot, Mohammad Arfan Ikram, Meike W. Vernooij, Esther Bron
2019	—	`conf`	APIR-Net: Autocalibrated Parallel Imaging Reconstruction Using a Neural Network. MLMIR@MICCAI Chaoping Zhang, Florian Dubost, Marleen de Bruijne, Stefan Klein, Dirk H. J. Poot
2019	J	`jnl`	APIR-Net: Autocalibrated Parallel Imaging Reconstruction using a Neural Network. CoRR Chaoping Zhang, Florian Dubost, Marleen de Bruijne, Stefan Klein, Dirk H. J. Poot
2019	—	`conf`	Classification Of Prostate Cancer: High Grade Versus Low Grade Using A Radiomics Approach. ISBI Jose M. Castillo T, Martijn P. A. Starmans, Wiro J. Niessen, Ivo Schoots, Stefan Klein, Jifke F. Veenland
2019	J	`jnl`	Disease progression timeline estimation for Alzheimer's disease using discriminative event based modeling. NeuroImage Vikram Venkatraghavan, Esther E. Bron, Wiro J. Niessen, Stefan Klein
2019	—	`conf`	Event-Based Modeling with High-Dimensional Imaging Biomarkers for Estimating Spatial Progression of Dementia. IPMI Vikram Venkatraghavan, Florian Dubost, Esther E. Bron, Wiro J. Niessen, Marleen de Bruijne, Stefan Klein
2019	J	`jnl`	Event-Based Modeling with High-Dimensional Imaging Biomarkers for Estimating Spatial Progression of Dementia. CoRR Vikram Venkatraghavan, Florian Dubost, Esther E. Bron, Wiro J. Niessen, Marleen de Bruijne, Stefan Klein
2019	J	`jnl`	Groupwise Multichannel Image Registration. IEEE J. Biomed. Health Informatics Jean-Marie Guyader, Wyke Huizinga, Valerio Fortunati, Dirk H. J. Poot, Jifke F. Veenland, Margarethus M. Paulides, Wiro J. Niessen, Stefan Klein
2019	—	`conf`	Multi-modal Segmentation with Missing MR Sequences Using Pre-trained Fusion Networks. DART/MIL3ID@MICCAI Karin van Garderen, Marion Smits, Stefan Klein
2019	J	`jnl`	Multi-modal segmentation with missing MR sequences using pre-trained fusion networks. CoRR Karin van Garderen, Marion Smits, Stefan Klein
2019	—	`conf`	TADPOLE Challenge: Accurate Alzheimer's Disease Prediction Through Crowdsourced Forecasting of Future Data. PRIME@MICCAI Razvan V. Marinescu, Neil P. Oxtoby, Alexandra L. Young, Esther E. Bron, Arthur W. Toga, Michael W. Weiner, Frederik Barkhof, Nick C. Fox, Polina Golland, Stefan Klein, Daniel C. Alexander
2019	—	`conf`	The Continuous Registration Challenge: Evaluation-as-a-Service for Medical Image Registration Algorithms. ISBI Kasper Marstal, Floris F. Berendsen, Niels Dekker, Marius Staring, Stefan Klein
2019	J	`jnl`	Towards continuous learning for glioma segmentation with elastic weight consolidation. CoRR Karin van Garderen, Sebastian R. van der Voort, Fatih Incekara, Marion Smits, Stefan Klein
2018	J	`jnl`	A spatio-temporal reference model of the aging brain. NeuroImage Wyke Huizinga, Dirk H. J. Poot, Meike W. Vernooij, Gennady Roshchupkin, Esther Bron, Mohammad Arfan Ikram, Daniel Rueckert, Wiro J. Niessen, Stefan Klein
2018	—	`conf`	Averaged Stochastic Optimization for Medical Image Registration Based on Variance Reduction. WBIR Wei Sun, Dirk H. J. Poot, Xuan Yang, Wiro J. Niessen, Stefan Klein
2018	—	`ed.`	Biomedical Image Registration - 8th International Workshop, WBIR 2018, Leiden, The Netherlands, June 28-29, 2018, Proceedings WBIR Stefan Klein, Marius Staring, Stanley Durrleman, Stefan Sommer
2018	B	`conf`	Classification of malignant and benign liver tumors using a radiomics approach. Image Processing Martijn P. A. Starmans, Razvan L. Miclea, Sebastian R. van der Voort, Wiro J. Niessen, Maarten G. Thomeer, Stefan Klein
2018	J	`jnl`	Disease Progression Timeline Estimation for Alzheimer's Disease using Discriminative Event Based Modeling. CoRR Vikram Venkatraghavan, Esther E. Bron, Wiro J. Niessen, Stefan Klein, Alzheimer's Disease Neuroimaging Initiative
2018	J	`jnl`	Intrasubject multimodal groupwise registration with the conditional template entropy. Medical Image Anal. Mathias Polfliet, Stefan Klein, Wyke Huizinga, Margarethus M. Paulides, Wiro J. Niessen, Jef Vandemeulebroucke
2018	—	`conf`	Local Image Registration Uncertainty Estimation Using Polynomial Chaos Expansions. WBIR Gokhan Gunay, Sebastian R. van der Voort, Ha Manh Luu, Adriaan Moelker, Stefan Klein
2017	—	`conf`	A Discriminative Event Based Model for Alzheimer's Disease Progression Modeling. IPMI Vikram Venkatraghavan, Esther E. Bron, Wiro J. Niessen, Stefan Klein
2017	J	`jnl`	A Discriminative Event Based Model for Alzheimer's Disease Progression Modeling. CoRR Vikram Venkatraghavan, Esther Bron, Wiro J. Niessen, Stefan Klein
2017	B	`conf`	Active registration models. Image Processing Kasper Marstal, Stefan Klein
2017	B	`conf`	Laplacian eigenmaps for multimodal groupwise image registration. Image Processing Mathias Polfliet, Stefan Klein, Wiro J. Niessen, Jef Vandemeulebroucke
2017	—	`conf`	Parameter Sensitivity Analysis in Medical Image Registration Algorithms Using Polynomial Chaos Expansions. MICCAI (1) Gokhan Gunay, Sebastian R. van der Voort, Ha Manh Luu, Adriaan Moelker, Stefan Klein
2017	—	`conf`	Radiogenomic classification of the 1p/19q status in presumed low-grade gliomas. ISBI Sebastian R. van der Voort, Renske Gahrmann, Martin J. van den Bent, Arnaud J. P. E. Vincent, Wiro J. Niessen, Marion Smits, Stefan Klein
2017	J	`jnl`	Randomly Perturbed B-Splines for Nonrigid Image Registration. IEEE Trans. Pattern Anal. Mach. Intell. Wei Sun, Wiro J. Niessen, Stefan Klein
2017	J	`jnl`	Registration-by-regression of coronary CTA and X-ray angiography. Comput. methods Biomech. Biomed. Eng. Imaging Vis. Ana Isabel Rodrigues Gouveia, Coert Metz, Luis Freire, Pedro Almeida, Stefan Klein
2017	J	`jnl`	Stochastic optimization with randomized smoothing for image registration. Medical Image Anal. Wei Sun, Dirk H. J. Poot, Ihor Smal, Xuan Yang, Wiro J. Niessen, Stefan Klein
2016	J	`jnl`	A survey of medical image registration - under review. Medical Image Anal. Max A. Viergever, J. B. Antoine Maintz, Stefan Klein, Keelin Murphy, Marius Staring, Josien P. W. Pluim
2016	—	`conf`	Modeling the brain morphology distribution in the general aging population. Biomedical Applications in Molecular, Structural, and Functional Imaging Wyke Huizinga, Dirk H. J. Poot, Gennady V. Roshchupkin, Esther E. Bron, Mohammad Arfan Ikram, Meike W. Vernooij, Daniel Rueckert, Wiro J. Niessen, Stefan Klein
2016	J	`jnl`	PCA-based groupwise image registration for quantitative MRI. Medical Image Anal. Wyke Huizinga, Dirk H. J. Poot, Jean-Marie Guyader, R. Klaassen, Bram F. Coolen, Matthijs van Kranenburg, Robert Jan van Geuns, André Uitterdijk, Mathias Polfliet, Jef Vandemeulebroucke, Alexander Leemans, Wiro J. Niessen, Stefan Klein
2016	B	`conf`	Semi-automated registration of pre- and intra-operative liver CT for image-guided interventions. Image Processing Gokhan Gunay, Ha Manh Luu, Theo van Walsum, Stefan Klein
2016	—	`conf`	SimpleElastix: A User-Friendly, Multi-lingual Library for Medical Image Registration. CVPR Workshops Kasper Marstal, Floris F. Berendsen, Marius Staring, Stefan Klein
2016	—	`conf`	The Design of SuperElastix - A Unifying Framework for a Wide Range of Image Registration Methodologies. CVPR Workshops Floris F. Berendsen, Kasper Marstal, Stefan Klein, Marius Staring
2016	—	`conf`	The pythagorean averages as group images in efficient groupwise registration. ISBI Mathias Polfliet, Stefan Klein, Wyke Huizinga, Johan de Mey, Jef Vandemeulebroucke
2016	—	`conf`	Total Correlation-Based Groupwise Image Registration for Quantitative MRI. CVPR Workshops Jean-Marie Guyader, Wyke Huizinga, Valerio Fortunati, Dirk H. J. Poot, Matthijs van Kranenburg, Jifke F. Veenland, Margarethus M. Paulides, Wiro J. Niessen, Stefan Klein
2015	J	`jnl`	Detecting Statistically Significant Differences in Quantitative MRI Experiments, Applied to Diffusion Tensor Imaging. IEEE Trans. Medical Imaging Dirk H. J. Poot, Stefan Klein
2015	—	`conf`	Diffeomorphic image registration with automatic time-step adjustment. ISBI Akshay Pai, Stefan Klein, Stefan Sommer, Sune Darkner, Jon Sporring, Mads Nielsen
2015	J	`jnl`	Feature Selection Based on the SVM Weight Vector for Classification of Dementia. IEEE J. Biomed. Health Informatics Esther E. Bron, Marion Smits, Wiro J. Niessen, Stefan Klein
2015	—	`conf`	Groupwise image registration of multimodal head-and-neck images. ISBI Jean-Marie Guyader, Wyke Huizinga, Valerio Fortunati, Jifke F. Veenland, Margarethus M. Paulides, Wiro J. Niessen, Stefan Klein
2015	J	`jnl`	Lumen Segmentation and Motion Estimation in B-Mode and Contrast-Enhanced Ultrasound Images of the Carotid Artery in Patients With Atherosclerotic Plaque. IEEE Trans. Medical Imaging Diego D. B. Carvalho, Zeynettin Akkus, Stijn C. H. van den Oord, Arend F. L. Schinkel, Antonius F. W. van der Steen, Wiro J. Niessen, Johan G. Bosch, Stefan Klein
2015	J	`jnl`	XNAT imaging platform for BioMedBridges and CTMM TraIT. J. Clin. Bioinform. Stefan Klein, Erwin Vast, Johan van Soest, Andre Dekker, Marcel Koek, Wiro J. Niessen
2014	B	`conf`	Atherosclerotic carotid lumen segmentation in combined B-mode and contrast enhanced ultrasound images. Image Processing Zeynettin Akkus, Diego D. B. Carvalho, Stefan Klein, Stijn C. H. van den Oord, Arend F. L. Schinkel, Nico de Jong, Antonius F. W. van der Steen, Johan G. Bosch
2014	—	`conf`	Fast Multidimensional B-spline Interpolation Using Template Metaprogramming. WBIR Wyke Huizinga, Stefan Klein, Dirk H. J. Poot
2014	—	`conf`	Feature Selection Based on SVM Significance Maps for Classification of Dementia. MLMI Esther Bron, Marion Smits, John van Swieten, Wiro J. Niessen, Stefan Klein
2014	—	`conf`	Free-Form Deformation Using Lower-Order B-spline for Nonrigid Image Registration. MICCAI (1) Wei Sun, Wiro J. Niessen, Stefan Klein
2014	B	`conf`	Influence of image registration on ADC images computed from free-breathing diffusion MRIs of the abdomen. Image Processing Jean-Marie Guyader, Livia Bernardin, Naomi H. M. Douglas, Dirk H. J. Poot, Wiro J. Niessen, Stefan Klein
2014	—	`conf`	Non-rigid Groupwise Image Registration for Motion Compensation in Quantitative MRI. WBIR Wyke Huizinga, Dirk H. J. Poot, Jean-Marie Guyader, Henk Smit, Matthijs van Kranenburg, Robert Jan van Geuns, André Uitterdijk, Heleen M. M. van Beusekom, Bram F. Coolen, Alexander Leemans, Wiro J. Niessen, Stefan Klein
2014	B	`conf`	Nonrigid motion compensation in B-mode and contrast enhanced ultrasound image sequences of the carotid artery. Image Processing Diego D. B. Carvalho, Zeynettin Akkus, Johan G. Bosch, Stijn C. H. van den Oord, Wiro J. Niessen, Stefan Klein
2014	—	`conf`	Randomly Perturbed Free-Form Deformation for Nonrigid Image Registration. WBIR Wei Sun, Wiro J. Niessen, Stefan Klein
2014	B	`conf`	Wavelet based free-form deformations for nonrigid registration. Image Processing Wei Sun, Wiro J. Niessen, Stefan Klein
2013	J	`jnl`	Automatic carotid artery distensibility measurements from CTA using nonrigid registration. Medical Image Anal. K. Hameeteman, Sietske Rozie, Coert Metz, Rashindra Manniesing, Theo van Walsum, Aad van der Lugt, Wiro J. Niessen, Stefan Klein
2013	B	`conf`	Bias correction of maximum likelihood estimation in quantitative MRI. Image Processing Dirk H. J. Poot, Gyula Kotek, Wiro J. Niessen, Stefan Klein
2013	—	`conf`	Carotid Artery Lumen Segmentation in 3D Free-Hand Ultrasound Images Using Surface Graph Cuts. MICCAI (2) Andrés M. Arias Lorza, Diego D. B. Carvalho, Jens Petersen, Anouk C. van Dijk, Aad van der Lugt, Wiro J. Niessen, Stefan Klein, Marleen de Bruijne
2013	J	`jnl`	Fast Parallel Image Registration on CPU and GPU for Diagnostic Classification of Alzheimer's Disease. Frontiers Neuroinformatics Denis P. Shamonin, Esther Bron, Boudewijn P. F. Lelieveldt, Marion Smits, Stefan Klein, Marius Staring
2013	—	`conf`	Groupwise Registration for Correcting Subject Motion and Eddy Current Distortions in Diffusion MRI Using a PCA Based Dissimilarity Metric. CDMRI/MMBC@MICCAI Wyke Huizinga, Coert T. Metz, Dirk H. J. Poot, Meike de Groot, Wiro J. Niessen, Alexander Leemans, Stefan Klein
2013	J	`jnl`	Improving alignment in Tract-based spatial statistics: Evaluation and optimization of image registration. NeuroImage Marius de Groot, Meike W. Vernooij, Stefan Klein, Mohammad Arfan Ikram, Frans M. Vos, Stephen M. Smith, Wiro J. Niessen, Jesper L. R. Andersson
2013	J	`jnl`	Registration of 3D+t Coronary CTA and Monoplane 2D+t X-Ray Angiography. IEEE Trans. Medical Imaging Coert Metz, Michiel Schaap, Stefan Klein, Nora Baka, Lisan Neefjes, Carl J. Schultz, Wiro J. Niessen, Theo van Walsum
2013	—	`conf`	Segmentation of 3D Transesophageal Echocardiograms by Multi-cavity Active Shape Model and Gamma Mixture Model. AE-CAI Alexander Haak, Gonzalo Vegas-Sánchez-Ferrero, Harriët H. Mulder, Hortense A. Kirisli, Nora Baka, Coert Metz, Stefan Klein, Ben Ren, Gerard van Burken, Anton F. W. van der Steen, Josien P. W. Pluim, Theo van Walsum, Johan G. Bosch
2013	J	`jnl`	Simultaneous Multiresolution Strategies for Nonrigid Image Registration. IEEE Trans. Image Process. Wei Sun, Wiro J. Niessen, Marijn van Stralen, Stefan Klein
2013	—	`conf`	Validation of a non-rigid registration method for motion compensation in 4D ultrasound of the liver. ISBI Sinara Vijayan, Stefan Klein, Erlend Fagertun Hofstad, Frank Lindseth, Brynjulf Ystgaard, Thomas Langø
2012	—	`conf`	3D-2D image registration by nonlinear regression. ISBI Ana Isabel Rodrigues Gouveia, Coert Metz, Luis Freire, Stefan Klein
2012	J	`jnl`	Automated Brain Structure Segmentation Based on Atlas Registration and Appearance Models. IEEE Trans. Medical Imaging Fedde van der Lijn, Marleen de Bruijne, Stefan Klein, Tom den Heijer, Yoo Young Hoogendam, Aad van der Lugt, Monique M. B. Breteler, Wiro J. Niessen
2012	J	`jnl`	Automated measurement of local white matter lesion volume. NeuroImage Fedde van der Lijn, Benjamin F. J. Verhaaren, Mohammad Arfan Ikram, Stefan Klein, Marleen de Bruijne, Henri A. Vrooman, Meike W. Vernooij, Alexander Hammers, Daniel Rueckert, Aad van der Lugt, Monique M. B. Breteler, Wiro J. Niessen
2012	J	`jnl`	Cardiac motion-corrected iterative cone-beam CT reconstruction using a semi-automatic minimum cost path-based coronary centerline extraction. Comput. Medical Imaging Graph. Alfonso A. Isola, Coert Metz, Michiel Schaap, Stefan Klein, Michael Grass, Wiro J. Niessen
2012	—	`conf`	Comparative Evaluation of Regression Methods for 3D-2D Image Registration. ICANN (2) Ana Isabel Rodrigues Gouveia, Coert Metz, Luis Freire, Stefan Klein
2012	J	`jnl`	Estimating 3D lumen centerlines of carotid arteries in free-hand acquisition ultrasound. Int. J. Comput. Assist. Radiol. Surg. Diego D. B. Carvalho, Stefan Klein, Zeynettin Akkus, Gerrit L. ten Kate, Arend F. L. Schinkel, Johan G. Bosch, Aad van der Lugt, Wiro J. Niessen
2012	—	`conf`	Hierarchical vs. Simultaneous Multiresolution Strategies for Nonrigid Image Registration. WBIR Wei Sun, Wiro J. Niessen, Stefan Klein
2012	B	`conf`	Intracranial aneurysm growth quantification in CTA. Image Processing Azadeh Firouzian, Rashindra Manniesing, Coert T. Metz, Stefan Klein, Birgitta K. Velthuis, Gabriel J. E. Rinkel, Aad van der Lugt, Wiro J. Niessen
2012	—	`conf`	Quantitative imaging biomarkers in neurologic disease: Population study perspective. ISBI Wiro J. Niessen, Henri A. Vrooman, Renske de Boer, Fedde van der Lijn, Hakim C. Achterberg, Marcel Koek, Stefan Klein, Aad van der Lugt, Marleen de Bruijne, Mohammad Arfan Ikram, Meike W. Vernooij
2012	—	`conf`	Registration of Free-Hand Ultrasound and MRI of Carotid Arteries through Combination of Point-Based and Intensity-Based Algorithms. WBIR Diego D. B. Carvalho, Stefan Klein, Zeynettin Akkus, Gerrit L. ten Kate, Hui Tang, Mariana Selwaness, Arend F. L. Schinkel, Johan G. Bosch, Aad van der Lugt, Wiro J. Niessen
2012	J	`jnl`	Regression-Based Cardiac Motion Prediction From Single-Phase CTA. IEEE Trans. Medical Imaging Coert Metz, Nora Baka, Hortense A. Kirisli, Michiel Schaap, Stefan Klein, Lisan Neefjes, Nico Mollet, Boudewijn P. F. Lelieveldt, Marleen de Bruijne, Wiro J. Niessen, Theo van Walsum
2012	J	`jnl`	Reversible jump MCMC methods for fully automatic motion analysis in tagged MRI. Medical Image Anal. Ihor Smal, Noemí Carranza-Herrezuelo, Stefan Klein, Piotr Wielopolski, Adriaan Moelker, Tirza Springeling, Monique Bernsen, Wiro J. Niessen, Erik Meijering
2012	J	`jnl`	Semiautomatic carotid lumen segmentation for quantification of lumen geometry in multispectral MRI. Medical Image Anal. Hui Tang, Theo van Walsum, Robbert S. van Onkelen, Reinhard Hameeteman, Stefan Klein, Michiel Schaap, Fufa L. Tori, Quirijn J. A. van den Bouwhuijsen, Jacqueline C. M. Witteman, Aad van der Lugt, Lucas J. van Vliet, Wiro J. Niessen
2012	—	`conf`	Supervised in-vivo plaque characterization incorporating class label uncertainty. ISBI Arna van Engelen, Wiro J. Niessen, Stefan Klein, Harald C. Groen, Hence J. M. Verhagen, Jolanda J. Wentzel, Aad van der Lugt, Marleen de Bruijne
2011	—	`conf`	Alignment of 4D Coronary CTA with Monoplane X-ray Angiography. AE-CAI Coert Metz, Michiel Schaap, Stefan Klein, Peter R. Rijnbeek, Lisan Neefjes, Nico Mollet, Carl J. Schultz, Patrick W. Serruys, Wiro J. Niessen, Theo van Walsum
2011	J	`jnl`	Evaluation of Registration Methods on Thoracic CT: The EMPIRE10 Challenge. IEEE Trans. Medical Imaging Keelin Murphy, Bram van Ginneken, Joseph M. Reinhardt, Sven Kabus, Kai Ding, Xiang Deng, Kunlin Cao, Kaifang Du, Gary E. Christensen, Vincent Garcia, Tom Vercauteren, Nicholas Ayache, Olivier Commowick, Grégoire Malandain, Ben Glocker, Nikos Paragios, Nassir Navab, Vladlena Gorbunova, Jon Sporring, Marleen de Bruijne, Xiao Han, Mattias P. Heinrich, Julia A. Schnabel, Mark Jenkinson, Cristian Lorenz, Marc Modat, Jamie McClelland, Sébastien Ourselin, Sascha E. A. Muenzing, Max A. Viergever, Dante De Nigris, D. Louis Collins, Tal Arbel, Marta Peroni, Rui Li, Gregory C. Sharp, Alexander Schmidt-Richberg, Jan Ehrhardt, René Werner, Dirk Smeets, Dirk Loeckx, Gang Song, Nicholas J. Tustison, Brian B. Avants, James C. Gee, Marius Staring, Stefan Klein, Berend C. Stoel, Martin Urschler, Manuel Werlberger, Jef Vandemeulebroucke, Simon Rit, David Sarrut, Josien P. W. Pluim
2011	B	`conf`	Evaluation of optimization methods for intensity-based 2D-3D registration in x-ray guided interventions. Image Processing I. M. J. van der Bom, Stefan Klein, Marius Staring, R. Homan, Lambertus W. Bartels, Josien P. W. Pluim
2011	B	`conf`	Multispectral MRI centerline tracking in carotid arteries. Image Processing Hui Tang, Theo van Walsum, Robbert S. van Onkelen, Stefan Klein, Reinhard Hameeteman, Michiel Schaap, Quirijn J. A. van den Bouwhuijsen, Jacqueline C. M. Witteman, Aad van der Lugt, Lucas J. van Vliet, Wiro J. Niessen
2011	J	`jnl`	Nonrigid registration of dynamic medical imaging data using nD + t B-splines and a groupwise optimization approach. Medical Image Anal. Coert Metz, Stefan Klein, Michiel Schaap, Theo van Walsum, Wiro J. Niessen
2011	—	`conf`	Plaque characterization in ex vivo MRI evaluated by dense 3D correspondence with histology. Computer-Aided Diagnosis Arna van Engelen, Marleen de Bruijne, Stefan Klein, Hence J. M. Verhagen, Harald C. Groen, Jolanda J. Wentzel, Aad van der Lugt, Wiro J. Niessen
2011	—	`conf`	Preconditioned Stochastic Gradient Descent Optimisation for Monomodal Image Registration. MICCAI (2) Stefan Klein, Marius Staring, Patrik Andersson, Josien P. W. Pluim
2011	—	`conf`	Quantitative comparison of tracking methods for motion analysis in tagged MRI. ISBI Ihor Smal, Noemí Carranza-Herrezuelo, Stefan Klein, Wiro J. Niessen, Erik Meijering
2011	J	`jnl`	Semi-automatic construction of reference standards for evaluation of image registration. Medical Image Anal. Keelin Murphy, Bram van Ginneken, Stefan Klein, Marius Staring, Bartjan de Hoop, Max A. Viergever, Josien P. W. Pluim
2011	—	`conf`	Trans-Dimensional MCMC Methods for Fully Automatic Motion Analysis in Tagged MRI. MICCAI (1) Ihor Smal, Noemí Carranza-Herrezuelo, Stefan Klein, Wiro J. Niessen, Erik Meijering
2010	—	`conf`	A patient-specific coronary density estimate. ISBI Rahil Khurram Shahzad, Michiel Schaap, Theo van Walsum, Stefan Klein, Annick C. Weustink, Lucas J. van Vliet, Wiro J. Niessen
2010	J	`jnl`	Adaptive local multi-atlas segmentation: Application to the heart and the caudate nucleus. Medical Image Anal. Eva M. van Rikxoort, Ivana Isgum, Yulia Arzhaeva, Marius Staring, Stefan Klein, Max A. Viergever, Josien P. W. Pluim, Bram van Ginneken
2010	—	`conf`	Automated carotid artery distensibility measurements from CTA using nonrigid registration. ISBI Reinhard Hameeteman, Sietske Rozie, Coert Metz, Stefan Klein, Theo van Walsum, Aad van der Lugt, Wiro J. Niessen
2010	—	`conf`	Conditional Shape Models for Cardiac Motion Estimation. MICCAI (1) Coert Metz, Nora Baka, Hortense A. Kirisli, Michiel Schaap, Theo van Walsum, Stefan Klein, Lisan Neefjes, Nico Mollet, Boudewijn P. F. Lelieveldt, Marleen de Bruijne
2010	—	`conf`	Early diagnosis of dementia based on intersubject whole-brain dissimilarities. ISBI Stefan Klein, Marco Loog, Fedde van der Lijn, Tom den Heijer, Alexander Hammers, Marleen de Bruijne, Aad van der Lugt, Robert P. W. Duin, Monique M. B. Breteler, Wiro J. Niessen
2010	B	`conf`	Fully automatic cardiac segmentation from 3D CTA data: a multi-atlas based approach. Image Processing Hortense A. Kirisli, Michiel Schaap, Stefan Klein, Lisan Neefjes, Annick C. Weustink, Theo van Walsum, Wiro J. Niessen
2010	J	`jnl`	elastix: A Toolbox for Intensity-Based Medical Image Registration. IEEE Trans. Medical Imaging Stefan Klein, Marius Staring, Keelin Murphy, Max A. Viergever, Josien P. W. Pluim
2009	J	`jnl`	Adaptive Stochastic Gradient Descent Optimisation for Image Registration. Int. J. Comput. Vis. Stefan Klein, Josien P. W. Pluim, Marius Staring, Max A. Viergever
2009	—	`conf`	Cerebellum Segmentation in MRI Using Atlas Registration and Local Multi-Scale Image Descriptors. ISBI Fedde van der Lijn, Marleen de Bruijne, Yoo Young Hoogendam, Stefan Klein, Reinhard Hameeteman, Monique M. B. Breteler, Wiro J. Niessen
2009	—	`conf`	GPU Accelerated Alignment of 3-D CTA with 2-D X-Ray Data for Improved Guidance in Coronary Interventions. ISBI Coert Metz, Michiel Schaap, Stefan Klein, Annick C. Weustink, Nico Mollet, Carl J. Schultz, Robert Jan van Geuns, Patrick W. Serruys, Theo van Walsum, Wiro J. Niessen
2009	—	`conf`	Iterative Co-linearity Filtering and Parameterization of Fiber Tracts in the Entire Cingulum. MICCAI (1) Marius de Groot, Meike W. Vernooij, Stefan Klein, Alexander Leemans, Renske de Boer, Aad van der Lugt, Monique M. B. Breteler, Wiro J. Niessen
2009	—	`conf`	Patient Specific 4D Coronary Models from ECG-gated CTA Data for Intra-operative Dynamic Alignment of CTA with X-ray Images. MICCAI (1) Coert Metz, Michiel Schaap, Stefan Klein, Lisan Neefjes, Ermanno Capuano, Carl J. Schultz, Robert Jan van Geuns, Patrick W. Serruys, Theo van Walsum, Wiro J. Niessen
2009	J	`jnl`	Registration of Cervical MRI Using Multifeature Mutual Information. IEEE Trans. Medical Imaging Marius Staring, Uulke A. van der Heide, Stefan Klein, Max A. Viergever, Josien P. W. Pluim
2008	B	`conf`	Adaptive local multi-atlas segmentation: application to heart segmentation in chest CT scans. Image Processing Eva M. van Rikxoort, Ivana Isgum, Marius Staring, Stefan Klein, Bram van Ginneken
2008	—	`conf`	Semi-automatic Reference Standard Construction for Quantitative Evaluation of Lung CT Registration. MICCAI (2) Keelin Murphy, Bram van Ginneken, Josien P. W. Pluim, Stefan Klein, Marius Staring
2007	J	`jnl`	Evaluation of Optimization Methods for Nonrigid Medical Image Registration Using Mutual Information and B-Splines. IEEE Trans. Image Process. Stefan Klein, Marius Staring, Josien P. W. Pluim
2007	—	`conf`	Segmentation of the Prostate in MR Images by Atlas Matching. ISBI Stefan Klein, Uulke A. van der Heide, Bas W. Raaymakers, Alexis N. T. J. Kotte, Marius Staring, Josien P. W. Pluim
2006	—	`conf`	A Comparison of Acceleration Techniques for Nonrigid Medical Image Registration. WBIR Stefan Klein, Marius Staring, Josien P. W. Pluim
2006	B	`conf`	Nonrigid registration using a rigidity constraint. Image Processing Marius Staring, Stefan Klein, Josien P. W. Pluim
2005	B	`conf`	Comparison of gradient approximation techniques for optimisation of mutual information in nonrigid registration. Image Processing Stefan Klein, Marius Staring, Josien P. W. Pluim
2005	B	`conf`	Nonrigid registration with adaptive content-based filtering of the deformation field. Image Processing Marius Staring, Stefan Klein, Josien P. W. Pluim