Accepted or to appear

Papers in international journals

  1. K. Chung, C. Jacobs, E.T. Scholten, O.M. Mets, I. Dekker, M. Prokop, B. van Ginneken and C.M. Schaefer-Prokop. "Malignancy estimation of Lung-RADS criteria for subsolid nodules on CT: accuracy of low and high risk spectrum when using NLST nodules", European Radiology. Abstract/PDF DOI PMID 28439653

  2. W. Venderink, M. van der Leest, A. van Luijtelaar, W.J. van de Ven, J.J. Fütterer, J.M. Sedelaar and H.J. Huisman. "Retrospective comparison of direct in-bore magnetic resonance imaging (MRI) guided biopsy and fusion guided biopsy in patients with MRI lesions which are likely or highly likely to be clinically significant prostate cancer", World Journal of Urology. PDF DOI


Papers in international journals

  1. E.M. van Leijsen, I.W. van Uden, M. Ghafoorian, M.I. Bergkamp, V. Lohner, E.C. Kooijmans, H.M. van der Holst, A.M. Tuladhar, D.G. Norris, E.J. van Dijk, L.C. Rutten-Jacobs, B. Platel, C.J. Klijn and F.-E. de Leeuw. "Nonlinear temporal dynamics of cerebral small vessel disease The RUN DMC study", Neurology 2017. Abstract DOI

  2. L. Gallardo Estrella, E. Pompe, J.-M. Kuhnigk, D.A. Lynch, S.P. Bhatt, B. van Ginneken and E.M. van Rikxoort. "Computed tomography quantification of tracheal abnormalities in COPD and their influence on airflow limitation", Medical Physics 2017;44:3594-3603. Abstract/PDF DOI PMID 28423189

  3. A. Devaraj, B. van Ginneken, A. Nair and D. Baldwin. "Use of Volumetry for Lung Nodule Management: Theory and Practice", Radiology 2017;284:630-644. Abstract/PDF DOI PMID 28825886

  4. J. Melendez, R.H.H.M. Philipsen, P. Chanda-Kapata, V. Sunkutu, N. Kapata and B. van Ginneken. "Automatic versus human reading of chest X-rays in the Zambia National Tuberculosis Prevalence Survey", International Journal of Tuberculosis and Lung Disease 2017;21:880-886. Abstract/PDF DOI PMID 28786796

  5. A.A.A. Setio, A. Traverso, T. de Bel, M.S.N. Berens, C. v. d. Bogaard, P. Cerello, H. Chen, Q. Dou, M.E. Fantacci, B. Geurts, R. v. d. Gugten, P.A. Heng, B. Jansen, M.M.J. de Kaste, V. Kotov, J.Y.-H. Lin, J.T.M.C. Manders, A. Sóñora-Mengana, J.C. García-Naranjo, E. Papavasileiou, M. Prokop, M. Saletta, C.M. Schaefer-Prokop, E.T. Scholten, L. Scholten, M.M. Snoeren, E.L. Torres, J. Vandemeulebroucke, N. Walasek, G.C.A. Zuidhof, B. v. Ginneken and C. Jacobs. "Validation, comparison, and combination of algorithms for automatic detection of pulmonary nodules in computed tomography images: The LUNA16 challenge", Medical Image Analysis 2017;42:1-13. Abstract/PDF DOI arXiv PMID 28732268

  6. T.L.A. van den Heuvel, D.J. Graham, K.J. Smith, C.L. de Korte and J.A. Neasham. "Development of a Low-Cost Medical Ultrasound Scanner Using a Monostatic Synthetic Aperture", IEEE Transactions on Biomedical Circuits and Systems 2017;11(4):849-857. Abstract/PDF DOI PMID 28715339

  7. F.G. Venhuizen, B. van Ginneken, B. Liefers, Schreur, M.J. van Grinsven, S. Fauser, C.B. Hoyng, T. Theelen and C.I. Sánchez. "Robust Total Retina Thickness Segmentation in Optical Coherence Tomography Images using Convolutional Neural Networks", Biomedical Optics Express 2017;16(7):3292-3316. Abstract/PDF DOI PMID 28717568

  8. J.O. Wanders, K. Holland, N. Karssemeijer, P.H. Peeters, W.B. Veldhuis, R.M. Mann and C.H. van Gils. "The effect of volumetric breast density on the risk of screen-detected and interval breast cancers: a cohort study", Breast Cancer Research 2017;19(1):67. Abstract/PDF DOI PMID 28583146

  9. F.G. Venhuizen, B. van Ginneken, F. van Asten, M.J. van Grinsven, S. Fauser, C.B. Hoyng, T. Theelen and C.I. Sánchez. "Automated Staging of Age-Related Macular Degeneration Using Optical Coherence Tomography", Investigative Ophthalmology and Visual Science 2017;58(4):2318-2328. Abstract/PDF DOI PMID 28437528

  10. B.C. Lassen-Schmidt, J.-M. Kuhnigk, O. Konrad, B. van Ginneken and E. van Rikxoort. "Fast interactive segmentation of the pulmonary lobes from thoracic computed tomography data", Physics in Medicine and Biology 2017;62(16):6649-6665. Abstract/PDF DOI PMID 28570264

  11. M. Ghafoorian, N. Karssemeijer, T. Heskes, I. van Uden, C. Sanchez, G. Litjens, F.-E. de Leeuw, B. van Ginneken, E. Marchiori and B. Platel. "Location Sensitive Deep Convolutional Neural Networks for Segmentation of White Matter Hyperintensities", Nature Scientific Reports 2017;7(1):5110. Abstract/PDF DOI arXiv PMID 28698556

  12. K. Chung, C. Jacobs, E.T. Scholten, J.M. Goo, H. Prosch, N. Sverzellati, F. Ciompi, O.M. Mets, P.K. Gerke, M. Prokop, B. van Ginneken and C.M. Schaefer-Prokop. "Lung-RADS Category 4X: Does It Improve Prediction of Malignancy in Subsolid Nodules?", Radiology 2017;284(1):264-271. Abstract/PDF DOI PMID 28339311

  13. S.J. van Riel, F. Ciompi, C. Jacobs, M.M. Winkler Wille, E.T. Scholten, M. Naqibullah, S. Lam, M. Prokop, C. Schaefer-Prokop and B. van Ginneken. "Malignancy risk estimation of screen-detected nodules at baseline CT: comparison of the PanCan model, Lung-RADS and NCCN guidelines", European Radiology 2017;27(10):4019-4029. Abstract/PDF DOI PMID 28293773

  14. M.U. Dalmis, G. Litjens, K. Holland, A. Setio, R. Mann, N. Karssemeijer and A. Gubern-Mérida. "Using deep learning to segment breast and fibroglandular tissue in MRI volumes", Medical Physics 2017;44:533-546. Abstract/PDF DOI PMID 28035663

  15. K. Holland, A. Gubern-Mérida, R.M. Mann and N. Karssemeijer. "Optimization of volumetric breast density estimation in digital mammograms", Physics in Medicine and Biology 2017;62(9):3779-3797. Abstract/PDF DOI

  16. B. van Ginneken. "Fifty years of computer analysis in chest imaging: rule-based, machine learning, deep learning", Radiological Physics and Technology 2017;10(1):23-32. Abstract/PDF DOI PMID 28211015

  17. R. Manniesing, M.T. Oei, L.J. Oostveen, J. Melendez, E.J. Smit, B. Platel, C.I. Sánchez, F.J. Meijer, M. Prokop and B. van Ginneken. "White Matter and Gray Matter Segmentation in 4D Computed Tomography", Nature Scientific Reports 2017;7(119). Abstract/PDF DOI PMID 28273920

  18. L. Hogeweg, C.I. Sánchez, P. Maduskar, R.H.H.M. Philipsen and B. van Ginneken. "Fast and effective quantification of symmetry in medical images for pathology detection: application to chest radiography", Medical Physics 2017;44(6):2242-2256. Abstract/PDF DOI PMID 28134985

  19. E. Pompe, P.A. de Jong, D.A. Lynch, N. Lessmann, I. Išgum, B. van Ginneken, J.-W. Lammers and F.A. Mohamed Hoesein. "Computed tomographic findings in subjects who died from respiratory disease in the National Lung Screening Trial", European Respiratory Journal 2017;49:1601814. Abstract/PDF DOI PMID 28424361

  20. K. Holland, C.H. van Gils, R.M. Mann and N. Karssemeijer. "Quantification of masking risk in screening mammography with volumetric breast density maps", Breast Cancer Research and Treatment 2017;162(3):541-548. Abstract/PDF DOI

  21. M. Ghafoorian, N. Karssemeijer, T. Heskes, M. Bergkamp, J. Wissink, J. Obels, K. Keizer, F.-E. de Leeuw, B. van Ginneken, E. Marchiori and B. Platel. "Deep Multi-scale Location-aware 3D Convolutional Neural Networks for Automated Detection of Lacunes of Presumed Vascular Origin", NeuroImage: Clinical 2017. Abstract/PDF DOI arXiv PMID 28271039

  22. J.O.P. Wanders, K. Holland, W.B. Veldhuis, R.M. Mann, R.M. Pijnappel, P.H.M. Peeters, C.H. van Gils and N. Karssemeijer. "Volumetric breast density affects performance of digital screening mammography", Breast Cancer Research and Treatment 2017;162(1):95-103. Abstract/PDF DOI PMID 28012087

  23. A. Patel, B. van Ginneken, F.J.A. Meijer, E.J. van Dijk, M. Prokop and R. Manniesing. "Robust Cranial Cavity Segmentation in CT and CT Perfusion Images of Trauma and Suspected Stroke Patients", Medical Image Analysis 2017;36:216-228. Abstract/PDF DOI PMID 28011374

  24. J. Charbonnier, E. van Rikxoort, A. Setio, C. Schaefer-Prokop, B. van Ginneken and F. Ciompi. "Improving Airway Segmentation in Computed Tomography using Leak Detection with Convolutional Networks", Medical Image Analysis 2017;36:52-60. Abstract/PDF DOI PMID 27842236

  25. O.M. Mets, P.A. de Jong, E.T. Scholten, K. Chung, B. van Ginneken and C.M. Schaefer-Prokop. "Subsolid pulmonary nodule morphology and associated patient characteristics in a routine clinical population", European Radiology 2017;27(2):689-696. Abstract/PDF DOI PMID 27255399

  26. F. Ciompi, K. Chung, S.J. van Riel, A.A.A. Setio, P.K. Gerke, C. Jacobs, E.T. Scholten, C.M. Schaefer-Prokop, M.M.W. Wille, A. Marchiano, U. Pastorino, M. Prokop and B. van Ginneken. "Towards automatic pulmonary nodule management in lung cancer screening with deep learning", Nature Scientific Reports 2017(46479). Abstract/PDF DOI arXiv

  27. J.G. Cohen, H. Kim, S.B. Park, B. van Ginneken, G.R. Ferretti, C.H. Lee, J.M. Goo and C.M. Park. "Comparison of the effects of model-based iterative reconstruction and filtered back projection algorithms on software measurements in pulmonary subsolid nodules", European Radiology 2017;27:3266-3274. Abstract/PDF DOI PMID 28058482

  28. E. Gibson, Y. Hu, H. Huisman and D. Barratt. "Designing image segmentation studies: statistical power, sample size and reference standard quality", Medical Image Analysis 2017. Abstract DOI

  29. T. Kooi, B. van Ginneken, N. Karssemeijer and A. den Heeten. "Discriminating solitary cysts from soft tissue lesions in mammography using a pretrained deep convolutional neural network", Medical Physics 2017;44:1017-1027. Abstract/PDF DOI PMID 28094850

  30. T. Kooi and N. Karssemeijer. "Classifying Symmetrical Differences and Temporal Change in Mammography Using Deep Neural Networks", arXiv:1703.07715 2017. Abstract

  31. T. Kooi, G. Litjens, B. van Ginneken, A. Gubern-Merida, C.I. Sanchez, R. Mann, A. den Heeten and N. Karssemeijer. "Large scale deep learning for computer aided detection of mammographic lesions", Medical Image Analysis 2017;35:303-312. Abstract/PDF DOI PMID 27497072

  32. S. Laban, G. Giebel, N. Klümper, A. Schröck, J. Doescher, G. Spagnoli, J. Thierauf, M. Theodoraki, R. Remark, S. Gnjatic, R. Krupar, A. Sikora, G. Litjens, N. Grabe, G. Kristiansen, F. Bootz, P. Schuler, C. Brunner, J. Brägelmann, T. Hoffmann and S. Perner. "MAGE expression in head and neck squamous cell carcinoma primary tumors, lymph node metastases and respective recurrences: implications for immunotherapy", Oncotarget 2017. Abstract/PDF DOI PMID 28146422

  33. G. Litjens, T. Kooi, B. Ehteshami Bejnordi, A.A.A. Setio, F. Ciompi, M. Ghafoorian, J. van der Laak, B. van Ginneken and C. Sánchez. "A Survey on Deep Learning in Medical Image Analysis", Medical Image Analysis 2017;42:60-88. Abstract/PDF DOI arXiv PMID 28778026

  34. T. Mertzanidou, J.H. Hipwell, S. Reis, D.J. Hawkes, B. Ehteshami Bejnordi, M. Dalmis, S. Vreemann, B. Platel, J. van der Laak, N. Karssemeijer, M. Hermsen, P. Bult and R. Mann. "3D volume reconstruction from serial breast specimen radiographs for mapping between histology and 3D whole specimen imaging", Medical Physics 2017;44:935-948. Abstract/PDF DOI PMID 28064435

  35. J.-J. Mordang, A. Gubern-Merida, A. Bria, F. Tortorella, G. den Heeten and N. Karssemeijer. "Improving computer-aided detection assistance in breast cancer screening by removal of obviously false-positive findings", Medical Physics 2017;44(4):1390-1401. Abstract/PDF DOI PMID 28182277

  36. M.T.H. Oei, F.J.A. Meijer, W.-J. van der Woude, E.J. Smit, B. van Ginneken, R. Manniesing and M. Prokop. "Interleaving cerebral CT perfusion with neck CT angiography. Part II: clinical implementation and image quality", European Radiology 2017;27:2411-2418. Abstract/PDF DOI PMID 27651144

  37. U. Yousaf-Khan, C. van der Aalst, P.A. de Jong, M. Heuvelmans, E. Scholten, J. Walter, K. Nackaerts, H. Groen, R. Vliegenthart, K. Ten Haaf, M. Oudkerk and H. de Koning. "Risk stratification based on screening history: the NELSON lung cancer screening study.", Thorax 2017;72:819-824. Abstract/PDF DOI PMID 28360223

Papers in conference proceedings

  1. M. Ghafoorian, A. Mehrtash, T. Kapur, N. Karssemeijer, E. Marchiori, M. Pesteie, C.R.G. Guttmann, F.-E. de Leeuw, C.M. Tempany, B. van Ginneken, A. Fedorov, P. Abolmaesumi, B. Platel and W.M. Wells. "Transfer Learning for Domain Adaptation in MRI: Application in Brain Lesion Segmentation", in: Medical Image Computing and Computer-Assisted Intervention, 2017. Abstract arXiv

  2. A. Mehrtash, A. Sedghi, M. Ghafoorian, M. Taghipour, C.M. Tempany, W.M. Wells, T. Kapur, P. Mousavi, P. Abolmaesumi and A. Fedorov. "Classification of clinical significance of MRI prostate findings using 3D convolutional neural networks", in: Medical Imaging, volume 10134 of Proceedings of the SPIE, 2017, pages 101342A-101342A-4. Abstract/PDF DOI

  3. G.E. Humpire Mamani, A.A.A. Setio, B. van Ginneken and C. Jacobs. "Organ detection in thorax abdomen CT using multi-label convolutional neural networks", in: Medical Imaging, volume 10134 of Proceedings of the SPIE, 2017. Abstract/PDF DOI

  4. A. Patel, S. van de Leemput, M. Prokop, B. van Ginneken and R. Manniesing. "Automatic Cerebrospinal Fluid Segmentation in Non-Contrast CT Images Using a 3D Convolutional Network", in: Medical Imaging of Proceedings of the SPIE, 2017. Abstract/PDF DOI

  5. P. Bandi, R. van de Loo, M. Intezar, D. Geijs, F. Ciompi, B. van Ginneken, J. van der Laak and G. Litjens. "Comparison of Different Methods for Tissue Segmentation In Histopathological Whole-Slide Images", in: IEEE International Symposium on Biomedical Imaging, 2017, pages 591-595. Abstract/PDF DOI arXiv

  6. F. Ciompi, O.G.F. Geessink, B. Ehteshami Bejnordi, G.S. de Souza, A. Baidoshvili, G. Litjens, B. van Ginneken, I.D. Nagtegaal and J.A. van der Laak. "The importance of stain normalization in colorectal tissue classification with convolutional networks", in: IEEE International Symposium on Biomedical Imaging, 2017, pages 160-163. Abstract/PDF DOI arXiv

  7. B. Ehteshami Bejnordi, J. Lin, B. Glass, M. Mullooly, G. Gierach, M. Sherman, N. Karssemeijer, J.A. van der Laak and A. Beck. "Deep learning-based assessment of tumor-associated stroma for diagnosing breast cancer in histopathology images", in: IEEE International Symposium on Biomedical Imaging, 2017, pages 929-932. Abstract/PDF DOI arXiv PMID 28230532

  8. T.L.A. van den Heuvel, H. Petros, S. Santini, C.L. de Korte and B. van Ginneken. "A step towards measuring the fetal head circumference with the use of obstetric ultrasound in a low resource setting", in: Medical Imaging, volume 10139 of Proceedings of the SPIE, 2017, page 101390V. Abstract/PDF DOI

  9. T.L.A. van den Heuvel, H. Petros, S. Santini, C.L. de Korte and B. van Ginneken. "Combining Automated Image Analysis with Obstetric Sweeps for Prenatal Ultrasound Imaging in Developing Countries", in: MICCAI Workshop: Point-of-Care Ultrasound of Lecture Notes in Computer Science, 2017, pages 105-112. PDF

  10. T. Kooi and N. Karssemeijer. "Deep learning of symmetrical discrepancies for computer-aided detection of mammographic masses", in: Proceedings of the SPIE, 2017. Abstract/PDF DOI

  11. T. Kooi, J.-J. Mordang and N. Karssemeijer. "Conditional Random Field Modelling of Interactions Between Findings in Mammography", in: Proceedings of the SPIE, 2017. Abstract/PDF DOI

  12. B. Liefers, F.G. Venhuizen, T. Theelen, C. Hoyng, B. van Ginneken and C.I. Sanchez. "Fovea Detection in Optical Coherence Tomography using Convolutional Neural Networks", in: Medical Imaging, volume 10133 of Proceedings of the SPIE, 2017, page 1013302. Abstract/PDF DOI


  1. M. Silva, G. Capretti, N. Sverzellati, C. Jacobs, F. Ciompi, B. van Ginneken, C.M. Schaefer-Prokop, M. Prokop, A. Marchiano and U. Pastorino. "Non-solid and Part-solid Nodules: Comparison Between Visual and Computer Aided Detection", in: World Congress of Thoracic Imaging, 2017. Abstract

  2. F.G. Venhuizen, S. Schaffhauser, V. Schreur, B. Liefers, B. van Ginneken, C.B. Hoyng, T. Theelen, E.K. de Jong and C.I. Sánchez. "Fully automated detection of hyperreflective foci in optical coherence tomography", in: Association for Research in Vision and Ophthalmology, 2017. Abstract

  3. M. Silva, G. Capretti, N. Sverzellati, C. Jacobs, F. Ciompi, B. van Ginneken, C. Schaefer-Prokop, A. Marchianò and U. Pastorino. "Subsolid and part-solid nodules in lung cancer screening: comparison between visual and computer-aided detection", in: European Congress of Radiology, 2017. Abstract

  4. M. Meijs, S. Pegge, M. Prokop, B. van Ginneken, F.J.A. Meijer and R. Manniesing. "Detection of vessel occlusion in acute stroke is facilitated by color-coded 4D-CTA", in: European Congress of Radiology, 2017. PDF

  5. S.A. Pegge, M. Meijs, M. Prokop, R. Manniesing and F.J. Meijer. "Color-mapping of 4D-CTA for the detection and classification of cranial arteriovenous fistulas", in: #_European_Society_of_Neuroradiology_#, 2017. PDF

  6. A. Patel, F.J.A. Meijer, M. Prokop, B. van Ginneken and R. Manniesing. "Robust segmentation of the cranial cavity in non-contrast CT and CT perfusion of the brain", in: European Congress of Radiology, 2017. Abstract

  7. S. van de Leemput, F.J.A. Meijer, M. Prokop and R. Manniesing. "Cerebral white matter, gray matter and cerebrospinal fluid segmentation in CT using VCAST: a volumetric cluster annotation and segmentation tool", in: European Congress of Radiology, 2017. Abstract

  8. L. Stoilescu and H. Huisman. "Feasibility of multi­reference­tissue normalization of t2­weighted prostate MRI", in: Annual Meeting of the Radiological Society of North America, 2017. Abstract

  9. L. Stoilescu, M.C. Maas and H. Huisman. "Feasibility of multireference tissue normalization of T2-weighted prostate MRI.", in: ESMRMB, 2017. Abstract


  1. N. Kraamwinkel. "Automatic Liver Lesion Segmentation in Abdominal CT Scans: Exploring Cascaded 2D and 2.5D U-Net Approaches", Masters thesis, Universiteit van Amsterdam / Radboud UMC, 2017. PDF

  2. T. Kockelkorn. "Interactive texture analysis in chest CT Scans", PhD thesis, 2017. Abstract/PDF

  3. K. Holland. "Breast density measurement for personalised screening", PhD thesis, 2017. Abstract