Medical Image Analysis

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• 3D Camera Monitoring of Rodent Irradiation Geometry for High Precision Shielding

  Slegt, V. J. (Author), Raaijmakers, A. J. E. (Supervisor 1), Pluim, J. P. W. (Supervisor 2), Schwab, H.-M. (Supervisor 2), Staut, N. (External coach) & Verhaegen, F. (External coach), 29 Sept 2022

  Student thesis: Master

• 3D medical image segmentation with labeled and unlabeled data using autoencoders

  Sital, C. K. (Author), Raaijmakers, A. (Supervisor 1), Weese, J. (External coach) & Brosch, T. (External coach), 28 Nov 2019

  Student thesis: Master

• Accelerating MRI with a Quiet Wireless Insert Gradient Coil

  Weersink, H. P. (Author), Raaijmakers, A. J. E. (Supervisor 1), Scannell, C. (Supervisor 2), Huberts, W. (Supervisor 2), Vermeulen, G. N. J. P. (Supervisor 2), van Keulen, T. A. C. (Supervisor 2) & Cortes Garcia, I. (Supervisor 2), 25 Apr 2024

  Student thesis: Master

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• A computational biology framework: a data analysis tool to support biomedical engineers in their research

  Beishuizen, T. P. A. (Author), Bosnacki, D. (Supervisor 1), Cheplygina, V. (Supervisor 2), Hilbers, P. A. J. (Supervisor 2), Fletcher, G. (Supervisor 2) & Vanschoren, J. (Supervisor 2), 29 Nov 2018

  Student thesis: Master

• A Fair Optimization of Diffusion Model for 2D Cardiac MR Image Generation: Comparison between Hyperparameter Sets

  Huang, S.-K. (Author), Scannell, C. (Supervisor 1), Amirrajab, S. (Supervisor 2), de Mooij, R. A. J. (Supervisor 2) & van de Burgt, Y. B. (Supervisor 2), 18 Oct 2023

  Student thesis: Master

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• A Functionalized Anatomical Model for Transcutaneous Electrical Stimulation of the Spinal Cord to Improve Upper Extremity Motor Function

  de Graaf, M. A. F. A. (Author), Raaijmakers, A. J. E. (Supervisor 1), Pluim, J. P. W. (Supervisor 2), Lopata, R. G. P. (Supervisor 2) & Paoles, E. (External coach), 13 Sept 2021

  Student thesis: Master

• Altered Global Organization of Structural Covariance Networks Relate to Childhood Absence Epilepsy

  Eussen, M. J. A. (Author), Breeuwer, M. (Supervisor 1), Drenthen, G. S. (External coach), Bosnacki, D. (Supervisor 2) & Scannell, C. (Supervisor 2), 27 Feb 2023

  Student thesis: Master

• Analysis of Automated Segmentation of Stomach Contents in Longitudinal Magnetic Resonance Images using a 2D and 3D Deep Learning Approach

  Wolf, H. N. A. (Author), Veta, M. (Supervisor 1), Pluim, J. P. W. (Supervisor 2), Schwab, H.-M. (Supervisor 2), Smeets, P. A. M. (External coach), Camps, G. (External coach) & Witteman, B. (External coach), 25 Aug 2022

  Student thesis: Master

• Analyzing the relation between brain lesions and short association fibers using diffusion MRI

  Kamps, J. J. W. (Author), Sepasian, N. (Supervisor 1), Fuster, A. (Supervisor 2) & Pluim, J. P. W. (Supervisor 2), Jun 2017

  Student thesis: Master

• Assessment of paired and unpaired learning to improve the image quality of onboard CBCT for radiotherapy of prostate cancer

  Kerckhaert, C. E. M. (Author), Pluim, J. P. W. (Supervisor 1), van Eijnatten, M. (Supervisor 2), Tijssen, H. N. (External coach) & Markvoort, A. J. (Supervisor 2), 31 Mar 2022

  Student thesis: Master

• Automated B-Line Detection and Localization in Lung Ultrasound

  Lucassen, R. T. (Author), Veta, M. (Supervisor 1), Pluim, J. P. W. (Supervisor 2) & Lopata, R. G. P. (Supervisor 2), 25 Aug 2022

  Student thesis: Master

• Automated Cardiac MR Scar Quantification with an Optimized Cascaded Pipeline and GAN-Based Data Augmentation

  Lustermans, D. R. P. R. M. (Author), Breeuwer, M. (Supervisor 1), Scannell, C. (External coach) & Veta, M. (Supervisor 2), 19 May 2022

  Student thesis: Master

• Automated spinous process segmentation in X-ray images using convolutional neural networks

  Roodhorst, S. (Author), Pluim, J. (Supervisor 1) & Walsum, van, T. (External coach), 17 Dec 2018

  Student thesis: Master

• Automatic Cerebrovascular Segmentation of TOF-MRAs Using Deep Learning to Aid in Intracranial Aneurysm Detection

  de Vos, V. (Author), Pluim, J. P. W. (Supervisor 1), Cheplygina, V. (Supervisor 2), Wu, M. (Supervisor 2), Kuijf, H. J. (External coach) & Timmins, K. M. (External coach), 14 Jun 2021

  Student thesis: Master

• Automatic myocardial scar segmentation and quantification in LGE CMR images

  Borleh, A. (Author), Pluim, J. P. W. (Supervisor 1), Breeuwer, M. (Supervisor 2) & Hilbers, P. A. J. (Supervisor 2), 27 Aug 2020

  Student thesis: Master

• Automatic segmentation of the endometrium on 2D transvaginal ultrasound

  Wessels, B. (Author), Pluim, J. P. W. (Supervisor 1), Mischi, M. (Supervisor 2) & Schoot, B. C. (Supervisor 2), 25 May 2023

  Student thesis: Master

• Autonomous Patient-Specific Magnetic Resonance Imaging Sequence Design via Real-Time Deep Reinforcement Learning

  Verschuren, S. H. A. (Author), Raaijmakers, A. J. E. (Supervisor 1), Scannell, C. (Supervisor 2), Schwab, H.-M. (Supervisor 2), van den Berg, C. A. T. (External coach) & Terpstra, M. (External coach), 31 Oct 2022

  Student thesis: Master

• Auto-segmentation of the Pituitary Adenoma and Normal Pituitary Tissue in Patients with Acromegaly

  Vromans, J. (Author), Breeuwer, M. (Supervisor 1), Klein, S. S. (External coach), Raaijmakers, A. J. E. (Supervisor 2) & Neggers, S. J. C. M. M. (External coach), Oct 2022

  Student thesis: Master

• Benchmarking of Activity Inference Methods against Total Count Variation in Single-Cell RNA Sequencing and Incorporation in Trajectory Inference

  de Rooij, M. (Author), Hilbers, P. A. J. (Supervisor 1), Eduati, F. (Supervisor 2), Finotello, F. (External coach), Raaijmakers, A. J. E. (Supervisor 2) & Pellegatta, S. (External coach), 2022

  Student thesis: Master

• Biomechanical model-based deformable image registration for CT-guided percutaneous liver tumor ablation interventions

  Cruts, J. M. H. (Author), van de Vosse, F. N. (Supervisor 1), Pluim, J. P. W. (Supervisor 2), Baragona, M. (External coach), Isfort, P. (External coach) & van Walsum, T. (External coach), 14 Jun 2021

  Student thesis: Master

• Brain blood perfusion and white matter integrity in accelerated cognitive ageing patiens with epilepsy

  Stevens, J. C. J. M. (Author), Breeuwer, M. (Supervisor 1), Pluim, J. (Supervisor 2), Aldenkamp, A. (Supervisor 2), Zinger, S. (Supervisor 2), Mestrom, R. (Supervisor 2) & Bernas, A. (Supervisor 2), 31 Oct 2019

  Student thesis: Master

• Canonical correlation analysis on microbial and metabolite data of individuals with metabolic syndrome

  van der Stam, J. (Author), Hilbers, P. A. J. (Supervisor 1), van Riel, N. (Supervisor 2), Veta, M. (Supervisor 2), Levin, E. (External coach) & Nieuwdorp, M. (External coach), 19 Jan 2019

  Student thesis: Master

• Causal candidate genes identification for familial hypercholesterolemia family based on whole-genome sequencing

  Wang, Q. (Author), Hilbers, P. A. J. (Supervisor 1), van Riel, N. A. W. (Supervisor 2), Hovingh, K. (External coach), Bosnacki, D. (Supervisor 2) & Veta, M. (Supervisor 2), 31 Aug 2017

  Student thesis: Master

• Challenges for Accelerated Partial Breast Irradiation on an MR-Linac: Electron streaming effect, synthetic CT for dose calculations and plan adaptation to daily MRI

  de Hond, Y. J. M. (Author), Raaijmakers, A. J. E. (Supervisor 1), Hackett, S. L. (External coach), Houweling, A. C. (External coach), van Eijnatten, M. (Supervisor 2) & Lopata, R. G. P. (Supervisor 2), 19 Apr 2021

  Student thesis: Master

• Clustered tumor phenotypes and resectability prediction for PDA using radiomic feature analysis

  Janse, M. H. A. (Author), de With, P. H. N. (Supervisor 1), Pluim, J. P. W. (Supervisor 2), Zinger, S. (Supervisor 2) & Hermans, J. J. (External coach), 27 Sept 2018

  Student thesis: Master

• Content based CT retrieval for pulmonary nodules: deep metric learning based feature extraction

  Aerts, T. G. (Author), Menkovski, V. (Supervisor 1), Holenderski, M. (Supervisor 2) & Veta, M. (Supervisor 2), 28 Feb 2019

  Student thesis: Master

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• Continuous arterial blood pressure estimations with the use of Photoplethysmography: A machine learning and arterial modelling approach

  van Waesberge, K. (Author), van de Vosse, F. N. (Supervisor 1), Serrarens, A. (External coach), Veta, M. (Supervisor 2), Huberts, W. (Supervisor 2) & Wijntjes, P. (Supervisor 2), 11 Oct 2021

  Student thesis: Master

• Convolutional neural networks for detection of metastases in patients diagnosed with breast cancer

  Nijhof, T. G. (Author), Pluim, J. (Supervisor 1), 25 Jan 2018

  Student thesis: Master

• Corneal endothelial cell segmentation and biomarker extraction in specular microscopy images using deep learning

  Timmers, D. F. M. (Author), Veta, M. (Supervisor 1), van Eijnatten, M. (Supervisor 2) & Bosnacki, D. (Supervisor 2), 13 Sept 2021

  Student thesis: Master

• Counterfactual Inference on Retina Fundus Images using Deep Structural Causal Models

  Liao, S. (Author), Menkovski, V. (Supervisor 1), Veta, M. (Supervisor 2) & Minartz, K. (Supervisor 2), 12 Dec 2022

  Student thesis: Master

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• CycleGAN for coronay vessel segmentation

  van den Bosch, P. C. J. (Author), Pluim, J. (Supervisor 1), Bovendeerd, P. (Supervisor 2), Veta, M. (Supervisor 2) & Oliván-Bescós, J. (External coach), 29 Aug 2019

  Student thesis: Master

• Deep Gray Matter Segmentation in Multiple Sclerosis: a Deep Learning Approach

  Koopman, K. (Author), Breeuwer, M. (Supervisor 1), Brouwer, I. (External coach) & Vrenken, H. (External coach), 13 Dec 2021

  Student thesis: Master

• Deep learning approaches for prostate cancer detection and grading in Bi-parametric MRI

  de Vente, C. W. (Author), Veta, M. (Supervisor 1), Vos, P. (External coach), van Riel, N. (Supervisor 2) & Pluim, J. (Supervisor 2), 29 Aug 2019

  Student thesis: Master

• Deep learning-based analysis of bone marrow histopathology images

  van Eekelen, L. (Author), Veta, M. (Supervisor 1), Pinckaers, H. (External coach), Hebeda, K. (External coach) & Litjens, G. J. S. (External coach), 19 Apr 2021

  Student thesis: Master

• Deep learning-based anatomy recognition for robot-assisted minimally invasive esophagectomy

  Jaspers, T. J. M. (Author), van Eijnatten, M. (Supervisor 1), Ruurda, J. P. (External coach), Raaijmakers, A. J. E. (Supervisor 2), Bosnacki, D. (Supervisor 2), van der Sommen, F. (Supervisor 2), de Jongh, C. (External coach) & den Boer, R. B. (External coach), 31 Oct 2022

  Student thesis: Master

• Deep learning based classification of spitzoid lesions on H&E stained histopathology whole slide images

  van Kerkvoorde, J. A. J. P. (Author), Veta, M. (Supervisor 1), van Eijnatten, M. (Supervisor 2), Bosnacki, D. (Supervisor 2), Blokx, W. A. M. (External coach) & Stathonikos, N. (External coach), 27 Aug 2020

  Student thesis: Master

• Deep Learning Based Deformable Image Registration of Abdominal CT scans during CT-Guided RF Ablation of Liver Tumours

  van den Berg, M. A. (Author), van Eijnatten, M. (Supervisor 1), Raaijmakers, A. J. E. (Supervisor 2), Grisoni, F. (Supervisor 2), van Walsum, T. (External coach) & Moelker, A. (External coach), 25 Aug 2022

  Student thesis: Master

• Deep Learning-based Hyperspectral Imaging: an intraoperative margin assessment technique for improving breast cancer surgery

  de Kruif, N. (Author), Pluim, J. P. W. (Supervisor 1), van Eijnatten, M. (Supervisor 2) & Bosnacki, D. (Supervisor 2), 11 Oct 2021

  Student thesis: Master

• Deep learning based image enhancement in limited-view ultrasound tomography

  van Pagee, L. J. (Author), Schwab, H.-M. (Supervisor 1), Awasthi, N. (Supervisor 2) & Brunsveld, L. (Supervisor 2), 29 Sept 2022

  Student thesis: Master

• Deep Learning-Based Prediction of Ischemic Stroke Complications from CT Images: Insights into Epilepsy and Intracranial Hemorrhages

  van Iersel, G. (Author), Pluim, J. P. W. (Supervisor 1), Elschot, E. P. (External coach) & Drenthen, G. S. (External coach), 2023

  Student thesis: Master

• Deep learning-based synthetic CT generation for brain MR-only radiotherapy: a multi-view approach on heterogeneous MRI of pediatric patients

  Bentvelzen, L. G. (Author), Breeuwer, M. (Supervisor 1), Maspero, M. (External coach) & Philippens, M. E. P. (External coach), 27 Aug 2020

  Student thesis: Master

• Deep learning for the detection of cerebral microinfarcts in MR images

  Volmer, L. F. (Author), Pluim, J. (Supervisor 1), Veta, M. (Supervisor 2) & van Riel, N. (Supervisor 2), 31 Oct 2019

  Student thesis: Master

• Deep Learning for Ultrasound Beamforming in the Radon Domain

  Jansen, G. E. (Author), Lopata, R. G. P. (Supervisor 1), Schwab, H.-M. (Supervisor 2), Awasthi, N. (Supervisor 2), van Eijnatten, M. (Supervisor 2) & van Sambeek, M. R. H. M. (Supervisor 2), 13 Sept 2021

  Student thesis: Master

• Deep learning motion estimation with temporal information for thoracic MRI-guided radiotherapy

  van Wier, A. W. M. (Author), Veta, M. (Supervisor 1), Terpstra, M. (External coach) & Maspero, M. (External coach), 28 Sept 2023

  Student thesis: Master

• Deep Learning on Computed Tomography Scans to Predict Immunotherapy Response of Patients with Metastatic Melanoma

  de Mooij, R. A. J. (Author), Veta, M. (Supervisor 1), Scannell, C. (Supervisor 2), Tel, J. (Supervisor 2) & ter Maat, R. (External coach), 24 Nov 2022

  Student thesis: Master

• Detection of Ductal Carcinoma in Situ in Whole-Slide Images Using Deep Learning

  Janssen, D. W. H. (Author), Veta, M. (Supervisor 1), Breeuwer, M. (Supervisor 2) & Bosnacki, D. (Supervisor 2), 13 Dec 2021

  Student thesis: Master

• Developing a fluid-structure interaction model to study intraluminal thrombus in abdominal aorta aneurysms

  Fonken, J. H. C. (Author), Lopata, R. G. P. (Supervisor 1), van de Vosse, F. N. (Supervisor 2), van Sambeek, M. R. H. M. (Supervisor 2), Raaijmakers, A. J. E. (Supervisor 2) & Nievergeld, A. H. M. (Supervisor 2), 27 Aug 2020

  Student thesis: Master

• Development and evaluation of radiation therapy dose distribution prediction models for breast cancer

  Bakx, N. L. M. (Author), Pluim, J. P. W. (Supervisor 1), Hurkmans, C. (External coach), Bluemink, H. (External coach) & Hagelaar, E. (External coach), 27 Aug 2020

  Student thesis: Master

• Development of coaxial cable antennas for ultra-high field MRI: The Coax Dipole and Coax Monopole Antenna

  Budé, L. M. I. (Author), Raaijmakers, A. J. E. (Supervisor 1), Zivkovic, I. (Supervisor 2) & Steensma, B. R. (External coach), 2023

  Student thesis: Master

• Development of Image Registration Workflow for Matching of Adolescent to Child Anatomy

  Husić, A. (Author), Breeuwer, M. (Supervisor 1), Zachiu, C. (External coach) & Seravalli, E. (External coach), 25 Aug 2022

  Student thesis: Master