Publications

2020

Journal Articles

Ecem Sogancioglu,Keelin Murphy,Erdi Calli, Ernst Scholten, Steven Schalekamp, Bram van Ginneken

Cardiomegaly Detection on Chest Radiographs: Segmentation Versus Classification Journal Article

IEEE Access, 8 , pp. 94631 - 94642, 2020, ISSN: 2169-3536.

Links | BibTeX

C. González-Gonzalo, B. Liefers, B. van Ginneken, C. I. Sánchez

Iterative augmentation of visual evidence for weakly-supervised lesion localization in deep interpretability frameworks: application to color fundus images Journal Article Forthcoming

IEEE Transactions on Medical Imaging, Forthcoming.

Abstract | Links | BibTeX

Suzanne C. Wetstein, Allison M. Onken, Christina Luffman, Gabrielle M. Baker, Michael E. Pyle, Kevin H. Kensler, Ying Liu, Bart Bakker, Ruud Vlutters, Marinus B. van Leeuwen, Laura C. Collins, Stuart J. Schnitt, Josien P. W. Pluim, Rulla M. Tamimi, Yujing J. Heng, Mitko Veta

Deep learning assessment of breast terminal duct lobular unit involution: Towards automated prediction of breast cancer risk Journal Article

PLoS ONE, 15 (4), pp. e0231653, 2020.

Abstract | Links | BibTeX

Coen de Vente, Pieter Vos, Matin Hosseinzadeh, Josien Pluim, Mitko Veta

Deep Learning Regression for Prostate Cancer Detection and Grading in Bi-parametric MRI Journal Article Forthcoming

IEEE Transactions on Biomedical Engineering, Forthcoming.

Abstract | Links | BibTeX

Gerda Bortsova, Daniel Bos, Florian Dubost, Meike W. Vernooij, M. Kamran Ikram, Gijs van Tulder, Marleen de Bruijne

Automated Assessment of Intracranial Carotid Artery Calcification in Non-Contrast CT Using Deep Learning Journal Article Forthcoming

Forthcoming.

BibTeX

Friso G. Heslinga, Mark Alberti, Josien P.W. Pluim, Javier Cabrerizo, Mitko Veta

Quantifying Graft Detachment after Descemet's Membrane Endothelial Keratoplasty with Deep Convolutional Neural Networks Journal Article Forthcoming

Translational Vision Science & Technology, Forthcoming.

Abstract | BibTeX

S. Bruns, J.M. Wolterink, R.A.P. Takx, R.W. van Hamersvelt, D. Suchá, M.A. Viergever, T. Leiner, I. Išgum

Deep learning from dual-energy information for whole-heart segmentation in dual-energy and single-energy non-contrast-enhanced cardiac CT Journal Article

Medical Physics (in press), 2020.

Abstract | Links | BibTeX

J.M.H. Noothout, B.D. de Vos, J.M. Wolterink, E.M. Postma, P.A.M. Smeets, R.A.P. Takx, T. Leiner, M.A. Viergever, I. Išgum

Deep learning-based regression and classification for automatic landmark localization in medical images Journal Article

IEEE Transactions on Medical Imaging (in press), 2020.

Abstract | Links | BibTeX

Kevin H. Kensler; Emily Z.F. Liu; Suzanne C. Wetstein; Allison M. Onken; Christina I. Luffman; Gabrielle M. Baker; Laura C. Collins; Stuart J. Schnitt; Vanessa C. Bret-Mounet; Mitko Veta; Josien P.W. Pluim; Ying Liu; Graham A. Colditz; A. Heather Eliassen; Susan E. Hankinson; Rulla M. Tamimi; Yujing J. Heng

Automated quantitative measures of terminal duct lobular unit involution and breast cancer risk Journal Article Forthcoming

Cancer epidemiology, biomarkers & prevention, Forthcoming.

Abstract | Links | BibTeX

Suzanne C Wetstein, Nikolas Stathonikos, Josien PW Pluim, Yujing J Heng, Natalie D ter Hoeve, Celien PH Vreuls, Paul J van Diest, Mitko Veta

Deep Learning-Based Grading of Ductal Carcinoma In Situ in Breast Histopathology Images Journal Article Forthcoming

arXiv, Forthcoming.

Abstract | Links | BibTeX

Inproceedings

B.D. de Vos, B.H.M. van der Velden, J. Sander, K.G.A. Gilhuijs, M. Staring, I. Išgum

Mutual information for unsupervised deep learning image registration Inproceedings

SPIE Medical Imaging, in press, 2020.

Abstract | Links | BibTeX

F.G. Heslinga, J.P.W. Pluim, A.J. Houben, M.T. Schram, R.M. Henry, C.D. Stehouwer, M.J. Van Greevenbroek, T.T. Berendschot, M. Veta

Direct Classification of Type 2 Diabetes From Retinal Fundus Images in a Population-based Sample From The Maastricht Study Inproceedings

Medical Imaging 2020: Computer-Aided Diagnosis, pp. 113141N, International Society for Optics and Photonics, 2020.

Abstract | Links | BibTeX

J.M.H. Noothout, E.M. Postma, S. Boesveldt, B.D. de Vos, P.A.M. Smeets, I. Išgum

Automatic segmentation of the olfactory bulbs in MRI Inproceedings

SPIE Medical Imaging (in press), 2020.

Abstract | BibTeX

S. Bruns, J.M. Wolterink, T.P.W. van den Boogert, J.P. Henriques, J. Baan, R.N. Planken, I. Išgum

Automatic whole-heart segmentation in 4D TAVI treatment planning CT Inproceedings

SPIE Medical Imaging (in press), 2020.

Abstract | BibTeX

J. Sander, B.D. de Vos, I. Išgum

Unsupervised super-resolution: creating high-resolution medical images from low-resolution anisotropic examples Inproceedings

SPIE Medical Imaging (in press), 2020.

Abstract | BibTeX

Conferences

Suzanne C. Wetstein, Cristina González-Gonzalo, Gerda Bortsova, Bart Liefers, Florian Dubost, Ioannis Katramados, Laurens Hogeweg, Bram van Ginneken, Josien P.W. Pluim, Marleen de Bruijne, Clara I. Sánchez, Mitko Veta

Adversarial Attack Vulnerability of Medical Image Analysis Systems: Unexplored Factors Conference

2020.

Abstract | Links | BibTeX

C. González-Gonzalo, S. C. Wetstein, G. Bortsova, B. Liefers, B. van Ginneken, C. I. Sánchez

Are adversarial attacks an actual threat for deep learning systems in real-world eye disease screening settings? Conference

European Society of Retina Specialists, 2020.

Abstract | Links | BibTeX

2019

Journal Articles

R.W. van Hamersvelt, I. Išgum, P.A. de Jong, M.J. Cramer, G.E. Leenders, M.J. Willemink, M. Voskuil, T. Leiner

Application of speCtraL computed tomogrAphy to impRove specIficity of cardiac compuTed tomographY (CLARITY study): Rationale and Design Journal Article

BMJ Open, 9 (3), pp. e025793, 2019.

Abstract | Links | BibTeX

M.U. Dalmış, A. Gubern-Merida, S. Vreemann, P. Bult, N. Karssemeijer, R. Mann; J. Teuwen.

Artificial Intelligence Based Classification of Breast Lesions Imaged With a Multi-Parametric Breast MRI Protocol With ultrafast DCE-MRI, T2 and DWI Journal Article

Investigative Radiology, 2019.

Links | BibTeX

C. González-Gonzalo, V. Sánchez-Gutiérrez, P. Hernández-Martínez, I. Contreras, Y. T. Lechanteur, A. Domanian, B. van Ginneken, C. I. Sánchez

Evaluation of a deep learning system for the joint automated detection of diabetic retinopathy and age-related macular degeneration Journal Article

Acta Ophthalmologica, 2019.

Abstract | Links | BibTeX

Ruwan Tennakoon, Gerda Bortsova, Silas Ørting, Amirali K Gostar, Mathilde MW Wille, Zaigham Saghir, Reza Hoseinnezhad, Marleen de Bruijne, Alireza Bab-Hadiashar

Classification of Volumetric Images Using Multi-Instance Learning and Extreme Value Theorem Journal Article

IEEE Transactions on Medical Imaging, 39 (4), pp. 854-865, 2019.

Abstract | Links | BibTeX

Inproceedings

S. Bruns, J.M. Wolterink, R.W. van Hamersvelt, M. Zreik, T. Leiner, I. Išgum

Improving myocardium segmentation in cardiac CT angiography using spectral information Inproceedings

SPIE Medical Imaging, 2019.

Abstract | Links | BibTeX

J. Sander, B.D. de Vos, J.M. Wolterink, I. Išgum

Towards increased trustworthiness of deep learning segmentation methods on cardiac MRI Inproceedings

SPIE Medical Imaging, 2019.

Abstract | Links | BibTeX

E. Calli, E. Sogancioglu, E.T. Scholten, K. Murphy; B. van Ginneken.

Handling label noise through model confidence and uncertainty: application to chest radiograph classification Inproceedings

Medical Imaging of Proceedings of the SPIE, 2019.

BibTeX

Suzanne C. Wetstein, Allison M. Onken, Gabrielle M. Baker, Michael E. Pyle, Josien P. W. Pluim, Rulla M. Tamimi, Yujing J. Heng, Mitko Veta

Detection of acini in histopathology slides: towards automated prediction of breast cancer risk Inproceedings

SPIE Medical Imaging, 2019.

Abstract | Links | BibTeX

Friso G. Heslinga, Josien P. W. Pluim, Behdad Dashtbozorg, Tos T. J. M. Berendschot, A. J. H. M. Houben, Ronald M. A. Henry, Mitko Veta

Approximation of a pipeline of unsupervised retina image analysis methods with a CNN Inproceedings

SPIE Medical Imaging, 2019.

Abstract | Links | BibTeX

J.M. Wolterink, T. Leiner, I. Išgum

Graph convolutional networks for coronary artery segmentation in cardiac CT angiography Inproceedings

1st International Workshop on Graph Learning in Medical Image (GLMI 2019), in press, 2019.

BibTeX

Gerda Bortsova, Florian Dubost, Laurens Hogeweg, Ioannis Katramados, Marleen de Bruijne

Semi-supervised medical image segmentation via learning consistency under transformations Inproceedings

International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 810-818, Springer, Cham, 2019.

Abstract | Links | BibTeX

Kimberlin MH van Wijnen, Florian Dubost, Pinar Yilmaz, M Arfan Ikram, Wiro J Niessen, Hieab Adams, Meike W Vernooij, Marleen de Bruijne

Automated lesion detection by regressing intensity-based distance with a neural network Inproceedings

International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 234-242, Springer, Cham, 2019.

Abstract | Links | BibTeX

Conferences

Allison M. Onken, Suzanne Wetstein, Michael Pyle, Josien Pluim, Stuart J. Schnitt, Gabrielle M Baker, Laura C. Collins, Rulla Tamimi, Mitko Veta, Yujing Jan Heng

Deep Learning Networks to Segment and Detect Breast Terminal Duct Lobular Units, Acini, and Adipose Tissue: A Step Toward the Automated Analysis of Lobular Involution as a Marker for Breast Cancer Risk Conference

United States and Canadian Academy of Pathology (USCAP), 2019.

Abstract | BibTeX

C. González-Gonzalo, B. Liefers, A. Vaidyanathan, H. J. van Zeeland, C. C. W. Klaver, C. I. Sánchez

Opening the “black box” of deep learning in automated screening of eye diseases Conference

Association for Research in Vision and Ophthalmology Annual Meeting. ARVO Vancouver, 2019.

Abstract | Links | BibTeX

J. Engelberts, C. González-Gonzalo, C. I. Sanchez, M. van Grinsven

Automatic Segmentation of Drusen and Exudates on Color Fundus Images using Generative Adversarial Networks Conference

Association for Research in Vision and Ophthalmology Annual Meeting. ARVO Vancouver, 2019.

Abstract | Links | BibTeX

S. Bruns, J.M. Wolterink, R.W. van Hamersvelt, T. Leiner, I. Išgum

CNN-based segmentation of the cardiac chambers and great vessels in non-contrast-enhanced cardiac CT Conference

Medical Imaging with Deep Learning. MIDL London, 2019.

Abstract | Links | BibTeX

Nikolas Lessmann, Jelmer M. Wolterink, Majd Zreik, Max A. Viergever, Bram van Ginneken, Ivana Išgum

Vertebra partitioning with thin-plate spline surfaces steered by a convolutional neural network Conference

Medical Imaging with Deep Learning. MIDL London, 2019.

Abstract | Links | BibTeX

Julia M.H. Noothout, Bob D. de Vos, Jelmer M. Wolterink, Richard A.P. Takx, Tim Leiner, Ivana Išgum

Deep Learning for Automatic Landmark Localization in CTA for Transcatheter Aortic Valve Implantation Conference

Radiological Society of North America, 105th Annual Meeting, 2019.

Abstract | Links | BibTeX

Christina I. Luffman, Suzanne C. Wetstein, Allison M. Onken, Michael E. Pyle, Kevin H. Kensler, Ying Liu, Josien P. Pluim, Mitko Veta, Stuart J. Schnitt, Rulla M. Tamimi, Gabrielle M. Baker, Laura C. Collins, Yu Jing Heng

Assessing Breast Terminal Duct Lobular Unit Involution: A Computational Pathology Approach Conference

Abstracts and Case Studies From the College of American Pathologists 2019 Annual Meeting (CAP19), 143 (9), Archives of Pathology & Laboratory Medicine, 2019.

Links | BibTeX

PhD Theses

R.W. van Hamersvelt

New dimensions in cardiovascular CT PhD Thesis

Utrecht University, The Netherlands, 2019, ISBN: 978-90-393-7092-6.

BibTeX

2018

Inproceedings

J.M.H. Noothout, B.D de Vos, J.M. Wolterink, T. Leiner, I. Isgum

CNN-based Landmark Detection in Cardiac CTA Scans Inproceedings

Medical Imaging with Deep Learning. MIDL Amsterdam, 2018.

Abstract | Links | BibTeX

J.M. Wolterink, T. Leiner, I. Isgum

Blood vessel geometry synthesis using generative adversarial networks Inproceedings

Medical Imaging with Deep Learning. MIDL Amsterdam, 2018.

Abstract | Links | BibTeX

J. M. Tomczak, M. Ilse, M. Welling, M. Jansen, H.G. Coleman, M. Lucas, K. de Laat, M. de Bruin, H. Marquering, M. J. van der Wel, O. J. de Boer, C. D. Savci-Heijink, S. L. Meijer

Histopathological classification of precursor lesions of esophageal adenocarcinoma: A Deep Multiple Instance Learning Approach Inproceedings

Medical Imaging with Deep Learning. MIDL Amsterdam, 2018.

Abstract | Links | BibTeX

M. Ilse, J. M. Tomczak, M. Welling

Attention-based deep multiple instance learning Inproceedings

International Conference on Machine Learning. ICML, 2018.

Abstract | Links | BibTeX

G. Bortsova, F. Dubost, S. Ørting, I. Katramados, L. Hogeweg, L. Thomsen, M. Wille, M. de Bruijne

Deep learning from label proportions for emphysema quantification Inproceedings

International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 768–776, Springer, Cham, 2018.

Abstract | Links | BibTeX

Conferences

J. van Vugt, E. Marchiori, R. Mann, A. Gubern-Mérida, N. Moriakov; J. Teuwen.

Vendor-independent soft tissue lesion detection using weakly supervised and unsupervised adversarial domain adaptation Conference

2018.

BibTeX

E. Sogancioglu, S. Hu, D. Belli; B. van Ginneken.

Chest X-ray Inpainting with Deep Generative Models Conference

arXiv:1809.01471, 2018.

BibTeX

C. González-Gonzalo, B. Liefers, B. van Ginneken, C. I. Sánchez

Improving weakly-supervised lesion localization with iterative saliency map refinement Conference

Medical Imaging with Deep Learning. MIDL Amsterdam, 2018.

Abstract | Links | BibTeX

2017

Inproceedings

J. M. Tomczak, M. Ilse, M. Welling

Deep Learning with Permutation-invariant Operator for Multiple-instance Histopathology Classification Inproceedings

Medical Imaging meets NIPS Workshop, 2017.

Abstract | Links | BibTeX