Dr. ir. Stefan Klein

Stefan Klein

Office: Na 25-16
Phone: +31-10-7043442
Email: s.klein@erasmusmc.nl
Website: http://www.bigr.nl/people/StefanKlein

Curriculum Vitae

Stefan Klein is associate-professor in medical image analysis. He is leading the Image Registration research line within the BIGR group. For an overview of his research, see the list of publications below, and the overview page.

In 2002, Stefan received his MSc degree at the University of Twente, Enschede, the Netherlands, at the faculty of mechanical engineering. His MSc-project was on the segmentation of fingerprint images, using hidden Markov models. From 2003-2008 he worked as a PhD student on the subject of medical image registration at the Image Sciences Institute, UMC Utrecht, the Netherlands. The resulting PhD thesis, entitled “Optimisation methods for medical image registration”, can be downloaded here. He started in May 2008 as a PostDoc in the BIGR group and is leading the Image Registration research since 2011.

Stefan is together with Marius Staring responsible for the development of elastix, a publicly available software package for image registration, based on the Insight Segmentation & Registration Toolkit.

Research lines

Cardiovascular Image Analysis

Image Registration

Publications

Google Scholar profile

Theses

  1. Klein, S. (2008). Optimisation methods for medical image registration (PhD thesis). Utrecht University.

Journal Articles

  1. Bron, E. E., Smits, M., Papma, J. M., Steketee, R. M. E., Meijboom, R., de Groot, M., … Klein, S. (2017). Multiparametric computer-aided differential diagnosis of Alzheimer’s disease and frontotemporal dementia using structural and advanced MRI. European Radiology, 27(8), 3372–3382.
  2. Carvalho, D. D. B., Lorza, A. M. A., Niessen, W. J., De Bruijne, M., & Klein, S. (2017). Automated Registration of Freehand B-Mode Ultrasound and Magnetic Resonance Imaging of the Carotid Arteries Based on Geometric Features. Ultrasound in Medicine & Biology, 43(1), 273–285.
  3. Gouveia, A. R., Metz, C., Freire, L., Almeida, P., & Klein, S. (2017). Registration-by-regression of coronary CTA and X-ray angiography. Computer Methods in Biomechanics and Biomedical Engineering: Imaging & Visualization, 5(3), 208–220.
  4. Gunay, G., Luu, M. H., Moelker, A., Walsum, T., & Klein, S. (2017). Semi-automated registration of pre-and intra-operative CT for image-guided percutaneous liver tumor ablation interventions. Medical Physics.
  5. Poot, D. H. J., Heijden, R. A., Middelkoop, M., Oei, E. H. G., & Klein, S. (2017). Dynamic contrast-enhanced MRI of the patellar bone: How to quantify perfusion. Journal of Magnetic Resonance Imaging.
  6. Schrantee, A., Bouziane, C., Bron, E. E., Klein, S., Bottelier, M. A., Kooij, J. J. S., … Reneman, L. (2017). Long-term effects of stimulant exposure on cerebral blood flow response to methylphenidate and behavior in attention-deficit hyperactivity disorder. Brain Imaging and Behavior, 1–9.
  7. Sun, W., Niessen, W. J., & Klein, S. (2017). Randomly perturbed B-splines for nonrigid image registration. IEEE Transactions on Pattern Analysis and Machine Intelligence, 39(7), 1401–1413.
  8. Sun, W., Poot, D. H. J., Smal, I., Yang, X., Niessen, W. J., & Klein, S. (2017). Stochastic optimization with randomized smoothing for image registration. Medical Image Analysis, 35, 146–158.
  9. Verschueren, J., van Tiel, J., Reijman, M., Bron, E. E., Klein, S., Verhaar, J. A. N., … Oei, E. H. G. (2017). Influence of delayed gadolinium enhanced MRI of cartilage (dGEMRIC) protocol on T2-mapping: is it possible to comprehensively assess knee cartilage composition in one post-contrast MR examination at 3 Tesla? Osteoarthritis and Cartilage.
  10. Verschueren, J., Meuffels, D. E., Bron, E. E., Klein, S., Kleinrensink, G.-J., Verhaar, J. A. N., … others. (2017). Possibility of quantitative T2-mapping MRI of cartilage near metal in high tibial osteotomy: A human cadaver study. Journal of Orthopaedic Research.
  11. Coolen, B. F., Poot, D. H. J., Liem, M. I., Smits, L. P., Gao, S., Kotek, G., … Nederveen, A. J. (2016). Three-dimensional quantitative T1 and T2 mapping of the carotid artery: Sequence design and in vivo feasibility. Magnetic Resonance in Medicine, 75(3), 1008–1017.
  12. van der Heijden, R. A., Oei, E. H. G., Bron, E. E., van Tiel, J., van Veldhoven, P. L. J., Klein, S., … van Middelkoop, M. (2016). No difference on quantitative magnetic resonance imaging in patellofemoral cartilage composition between patients with patellofemoral pain and healthy controls. The American Journal of Sports Medicine, 44(5), 1172–1178.
  13. Selwaness, M., Hameeteman, R., Van’t Klooster, R., Van den Bouwhuijsen, Q., Hofman, A., Franco, O. H., … others. (2016). Determinants of carotid atherosclerotic plaque burden in a stroke-free population. Atherosclerosis, 255, 186–192.
  14. Steketee, R. M. E., Bron, E. E., Meijboom, R., Houston, G. C., Klein, S., Mutsaerts, H. J. M. M., … others. (2016). Early-stage differentiation between presenile Alzheimer’s disease and frontotemporal dementia using arterial spin labeling MRI. European Radiology, 26(1), 244–253.
  15. Steketee, R. M. E., Meijboom, R., Bron, E. E., Osse, R. J., de Koning, I., Jiskoot, L. C., … others. (2016). Structural and functional brain abnormalities place phenocopy frontotemporal dementia (FTD) in the FTD spectrum. NeuroImage: Clinical, 11, 595–605.
  16. Viergever, M. A., Maintz, J. B. A., Klein, S., Murphy, K., Staring, M., & Pluim, J. P. W. (2016). A survey of medical image registration–under review. Medical Image Analysis, 33, 140–144.
  17. Akkus, Z., Carvalho, D. D. B., van den Oord, S. C. H., Schinkel, A. F. L., Niessen, W. J., de Jong, N., … Bosch, J. G. (2015). Fully automated carotid plaque segmentation in combined contrast-enhanced and B-mode ultrasound. Ultrasound in Medicine & Biology, 41(2), 517–531.
  18. Bron, E. E., Smits, M., Niessen, W. J., & Klein, S. (2015). Feature selection based on the SVM weight vector for classification of dementia. IEEE Journal of Biomedical and Health Informatics, 19(5), 1617–1626.
  19. Carvalho, D. D. B., Akkus, Z., van den Oord, S. C. H., Schinkel, A. F. L., van der Steen, A. F. W., Niessen, W. J., … Klein, S. (2015). Lumen segmentation and motion estimation in B-mode and contrast-enhanced ultrasound images of the carotid artery in patients with atherosclerotic plaque. IEEE Transactions on Medical Imaging, 34(4), 983–993.
  20. Guyader, J.-M., Bernardin, L., Douglas, N. H. M., Poot, D. H. J., Niessen, W. J., & Klein, S. (2015). Influence of image registration on apparent diffusion coefficient images computed from free-breathing diffusion MR images of the abdomen. Journal of Magnetic Resonance Imaging, 42(2), 315–330.
  21. Klein, S., Vast, E., Van Soest, J., Dekker, A., Koek, M., & Niessen, W. (2015). XNAT imaging platform for BioMedBridges and CTMM TraIT. Journal of Clinical Bioinformatics, 5(1), S18.
  22. Plenge, E., Klein, S., Niessen, W. J., & Meijering, E. (2015). Multiple Sparse Representations Classification. PloS One, 10(8), e0136827.
  23. Poot, D. H. J., & Klein, S. (2015). Detecting statistically significant differences in quantitative MRI experiments, applied to diffusion tensor imaging. IEEE Transactions on Medical Imaging, 34(5), 1164–1176.
  24. Ragheb, H., Thacker, N. A., Guyader, J.-M., Klein, S., deSouza, N. M., & Jackson, A. (2015). The accuracy of ADC measurements in liver is improved by a tailored and computationally efficient local-rigid registration algorithm. PloS One, 10(7), e0132554.
  25. Van Tiel, J., Kotek, G., Reijman, M., Bos, P. K., Bron, E. E., Klein, S., … others. (2015). Is T1ρmapping an alternative to delayed gadolinium-enhanced MR imaging of cartilage in the assessment of sulphated glycosaminoglycan content in human osteoarthritic knees? An in vivo validation study. Radiology, 279(2), 523–531.
  26. Carvalho, D. D. B., Klein, S., Akkus, Z., van Dijk, A. C., Tang, H., Selwaness, M., … Niessen, W. J. (2014). Joint intensity-and-point based registration of free-hand B-mode ultrasound and MRI of the carotid artery. Medical Physics, 41(5).
  27. van Engelen, A., Niessen, W. J., Klein, S., Groen, H. C., Verhagen, H. J. M., Wentzel, J. J., … de Bruijne, M. (2014). Atherosclerotic plaque component segmentation in combined carotid MRI and CTA data incorporating class label uncertainty. PloS One, 9(4), e94840.
  28. Smit, H., Guridi, R. P., Guenoun, J., Poot, D. H. J., Doeswijk, G. N., Milanesi, M., … Kotek, G. (2014). T1 mapping in the rat myocardium at 7 tesla using a modified CINE inversion recovery sequence. Journal of Magnetic Resonance Imaging, 39(4), 901–910.
  29. van Tiel, J., Kotek, G., Reijman, M., Bos, P. K., Bron, E. E., Klein, S., … Oei, E. H. G. (2014). Delayed gadolinium-enhanced MRI of the meniscus (dGEMRIM) in patients with knee osteoarthritis: relation with meniscal degeneration on conventional MRI, reproducibility, and correlation with dGEMRIC. European Radiology, 24(9), 2261–2270.
  30. Vijayan, S., Klein, S., Hofstad, E. F., Lindseth, F., Ystgaard, B., & Langø, T. (2014). Motion tracking in the liver: Validation of a method based on 4D ultrasound using a nonrigid registration technique. Medical Physics, 41(8).
  31. Bron, E. E., van Tiel, J., Smit, H., Poot, D. H. J., Niessen, W. J., Krestin, G. P., … Klein, S. (2013). Image registration improves human knee cartilage T1 mapping with delayed gadolinium-enhanced MRI of cartilage (dGEMRIC). European Radiology, 23(1), 246–252.
  32. Firouzian, A., Manniesing, R., Metz, C. T., Risselada, R., Klein, S., van Kooten, F., … Niessen, W. J. (2013). Quantification of intracranial aneurysm morphodynamics from ECG-gated CT angiography. Academic Radiology, 20(1), 52–58.
  33. de Groot, M., Verhaaren, B. F. J., de Boer, R., Klein, S., Hofman, A., van der Lugt, A., … Vernooij, M. W. (2013). Changes in normal-appearing white matter precede development of white matter lesions. Stroke, 44(4), 1037–1042.
  34. de Groot, M., Verhaaren, B., de Boer, R., Klein, S., Hofman, A., van der Lugt, A., … Vernooij, M. (2013). Development of white matter lesions is preceded by changes in normal-appearing white matter. Alzheimer’s & Dementia: The Journal of the Alzheimer’s Association, 9(4), P619–P620.
  35. de Groot, M., Vernooij, M. W., Klein, S., Ikram, M. A., Vos, F. M., Smith, S. M., … Andersson, J. L. R. (2013). Improving alignment in tract-based spatial statistics: evaluation and optimization of image registration. Neuroimage, 76, 400–411.
  36. Hameeteman, K., Rozie, S., Metz, C. T., Manniesing, R., van Walsum, T., van der Lugt, A., … Klein, S. (2013). Automatic carotid artery distensibility measurements from CTA using nonrigid registration. Medical Image Analysis, 17(5), 515–524.
  37. Hameeteman, K., van’t Klooster, R., Selwaness, M., van der Lugt, A., Witteman, J. C. M., Niessen, W. J., & Klein, S. (2013). Carotid wall volume quantification from magnetic resonance images using deformable model fitting and learning-based correction of systematic errors. Physics in Medicine and Biology, 58(5), 1605.
  38. van ’t Klooster, R., Staring, M., Klein, S., Kwee, R. M., Kooi, M. E., Reiber, J. H. C., … van der Geest, R. J. (2013). Automated registration of multispectral MR vessel wall images of the carotid artery. Medical Physics, 40(12).
  39. Metz, C. T., Schaap, M., Klein, S., Baka, N., Neefjes, L. A., Schultz, C. J., … van Walsum, T. (2013). Registration of 3D+t Coronary CTA and Monoplane 2D+t X-Ray Angiography. IEEE Transactions on Medical Imaging, 32(5), 919–931.
  40. Ruggiero, A., Guenoun, J., Smit, H., Doeswijk, G. N., Klein, S., Krestin, G. P., … Bernsen, M. R. (2013). In vivo MRI mapping of iron oxide-labeled stem cells transplanted in the heart. Contrast Media & Molecular Imaging, 8(6), 487–494.
  41. Shahzad, R., Bos, D., Metz, C., Rossi, A., Kirişli, H., van der Lugt, A., … others. (2013). Automatic quantification of epicardial fat volume on non-enhanced cardiac CT scans using a multi-atlas segmentation approach. Medical Physics, 40(9).
  42. Shahzad, R., van Walsum, T., Schaap, M., Rossi, A., Klein, S., Weustink, A. C., … Niessen, W. J. (2013). Vessel specific coronary artery calcium scoring: an automatic system. Academic Radiology, 20(1), 1–9.
  43. Shamonin, D. P., Bron, E. E., Lelieveldt, B. P. F., Smits, M., Klein, S., Staring, M., … others. (2013). Fast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer’s disease. Frontiers in Neuroinformatics, 7.
  44. Sun, W., Niessen, W. J., van Stralen, M., & Klein, S. (2013). Simultaneous multiresolution strategies for nonrigid image registration. IEEE Transactions on Image Processing, 22(12), 4905–4917.
  45. van Tiel, J., Reijman, M., Bos, P. K., Hermans, J., van Buul, G. M., Bron, E. E., … Oei, E. H. G. (2013). Delayed gadolinium-enhanced MRI of cartilage (dGEMRIC) shows no change in cartilage structural composition after viscosupplementation in patients with early-stage knee osteoarthritis. PLoS One, 8(11), e79785.
  46. van Tiel, J., Bron, E. E., Tiderius, C. J., Bos, P. K., Reijman, M., Klein, S., … others. (2013). Reproducibility of 3D delayed gadolinium enhanced MRI of cartilage (dGEMRIC) of the knee at 3.0 T in patients with early stage osteoarthritis. European Radiology, 23(2), 496–504.
  47. Van Engelen, A., Niessen, W. J., Klein, S., Groen, H. C., Van Gaalen, K., Verhagen, H. J., … De Bruijne, M. (2013). Automated segmentation of atherosclerotic histology based on pattern classification. Journal of Pathology Informatics, 4(Suppl).
  48. Carvalho, D. D. B., Klein, S., Akkus, Z., Gerrit, L., Schinkel, A. F. L., Bosch, J. G., … Niessen, W. J. (2012). Estimating 3D lumen centerlines of carotid arteries in free-hand acquisition ultrasound. International Journal of Computer Assisted Radiology and Surgery, 7(2), 207–215.
  49. Isola, A. A., Metz, C. T., Schaap, M., Klein, S., Grass, M., & Niessen, W. J. (2012). Cardiac motion-corrected iterative cone-beam CT reconstruction using a semi-automatic minimum cost path-based coronary centerline extraction. Computerized Medical Imaging and Graphics, 36(3), 215–226.
  50. van der Lijn, F., Verhaaren, B. F. J., Ikram, M. A., Klein, S., de Bruijne, M., Vrooman, H. A., … others. (2012). Automated measurement of local white matter lesion volume. Neuroimage, 59(4), 3901–3908.
  51. Metz, C. T., Baka, N., Kirisli, H., Schaap, M., Klein, S., Neefjes, L. A., … others. (2012). Regression-based cardiac motion prediction from single-phase CTA. IEEE Transactions on Medical Imaging, 31(6), 1311–1325.
  52. Smal, I., Carranza-Herrezuelo, N., Klein, S., Wielopolski, P., Moelker, A., Springeling, T., … Meijering, E. (2012). Reversible jump MCMC methods for fully automatic motion analysis in tagged MRI. Medical Image Analysis, 16(1), 301–324.
  53. Tang, H., van Walsum, T., van Onkelen, R. S., Hameeteman, R., Klein, S., Schaap, M., … others. (2012). Semiautomatic carotid lumen segmentation for quantification of lumen geometry in multispectral MRI. Medical Image Analysis, 16(6), 1202–1215.
  54. Van der Lijn, F., De Bruijne, M., Klein, S., Den Heijer, T., Hoogendam, Y. Y., Van der Lugt, A., … Niessen, W. J. (2012). Automated brain structure segmentation based on atlas registration and appearance models. IEEE Transactions on Medical Imaging, 31(2), 276–286.
  55. Alic, L., Haeck, J. C., Bol, K., Klein, S., van Tiel, S. T., Wielepolski, P. A., … Veenland, J. F. (2011). Facilitating tumor functional assessment by spatially relating 3D tumor histology and in vivo MRI: image registration approach. PLoS One, 6(8), e22835.
  56. Andersson, P., Pluim, J. P. W., Siero, J. C. W., Klein, S., Viergever, M. A., & Ramsey, N. F. (2011). Real-time decoding of brain responses to visuospatial attention using 7T fMRI. PLoS One, 6(11), e27638.
  57. Boehringer, S., Van Der Lijn, F., Liu, F., Günther, M., Sinigerova, S., Nowak, S., … others. (2011). Genetic determination of human facial morphology: links between cleft-lips and normal variation. European Journal of Human Genetics, 19(11), 1192.
  58. Metz, C. T., Klein, S., Schaap, M., van Walsum, T., & Niessen, W. J. (2011). Nonrigid registration of dynamic medical imaging data using nD+t B-splines and a groupwise optimization approach. Medical Image Analysis, 15(2), 238–249.
  59. Murphy, K., van Ginneken, B., Klein, S., Staring, M., de Hoop, B. J., Viergever, M. A., & Pluim, J. P. W. (2011). Semi-automatic construction of reference standards for evaluation of image registration. Medical Image Analysis, 15(1), 71–84.
  60. Van Engelen, A., Niessen, W. J., Klein, S., Groen, H. C., Verhagen, H. J. M., Wentzel, J. J., … de Bruijne, M. (2011). Multi-feature-based plaque characterization in ex vivo MRI trained by registration to 3D histology. Physics in Medicine and Biology, 57(1), 241.
  61. Chmarra, M. K., Klein, S., De Winter, J. C. F., Jansen, F.-W., & Dankelman, J. (2010). Objective classification of residents based on their psychomotor laparoscopic skills. Surgical Endoscopy, 24(5), 1031–1039.
  62. Groen, H. C., Van Walsum, T., Rozie, S., Klein, S., Van Gaalen, K., Gijsen, F. J. H., … others. (2010). Three-dimensional registration of histology of human atherosclerotic carotid plaques to in-vivo imaging. Journal of Biomechanics, 43(11), 2087–2092.
  63. Išgum, I., Rutten, A., Prokop, M., Staring, M., Klein, S., Pluim, J. P. W., … van Ginneken, B. (2010). Automated aortic calcium scoring on low-dose chest computed tomography. Medical Physics, 37(2), 714–723.
  64. Kirişli, H. A., Schaap, M., Klein, S., Papadopoulou, S.-L., Bonardi, M., Chen, C.-H., … others. (2010). Evaluation of a multi-atlas based method for segmentation of cardiac CTA data: a large-scale, multicenter, and multivendor study. Medical Physics, 37(12), 6279–6291.
  65. Klein, S., Staring, M., Murphy, K., Viergever, M. A., & Pluim, J. P. W. (2010). Elastix: a toolbox for intensity-based medical image registration. IEEE Transactions on Medical Imaging, 29(1), 196–205.
  66. van Rikxoort, E. M., Isgum, I., Arzhaeva, Y., Staring, M., Klein, S., Viergever, M. A., … van Ginneken, B. (2010). Adaptive local multi-atlas segmentation: Application to the heart and the caudate nucleus. Medical Image Analysis, 14(1), 39–49.
  67. Staring, M., Klein, S., Reiber, J. H. C., Niessen, W. J., & Stoel, B. C. (2010). Pulmonary image registration with elastix using a standard intensity-based algorithm. Medical Image Analysis for the Clinic: A Grand Challenge, 73–79.
  68. De Groot, M., Vernooij, M. W., Klein, S., Leemans, A., de Boer, R., van der Lugt, A., … Niessen, W. J. (2009). Asymmetry analysis along the entire cingulum in the general population. NeuroImage, 47, S105.
  69. Klein, S., Pluim, J. P. W., Staring, M., & Viergever, M. A. (2009). Adaptive stochastic gradient descent optimisation for image registration. International Journal of Computer Vision, 81(3), 227.
  70. Staring, M., Pluim, J. P. W., de Hoop, B., Klein, S., van Ginneken, B., Gietema, H., … Prokop, M. (2009). Image subtraction facilitates assessment of volume and density change in ground-glass opacities in chest CT. Investigative Radiology, 44(2), 61–66.
  71. Staring, M., Van Der Heide, U. A., Klein, S., Viergever, M. A., & Pluim, J. P. W. (2009). Registration of cervical MRI using multifeature mutual information. IEEE Transactions on Medical Imaging, 28(9), 1412–1421.
  72. Verhaaren, B. F. J., van der Lijn, F., Klein, S., van der Lugt, A., Niessen, W. J., & Breteler, M. M. B. (2009). Automated classification of periventricular and subcortical white matter lesions on MRI. Alzheimer’s & Dementia: The Journal of the Alzheimer’s Association, 5(4), P293–P294.
  73. Klein, S., Van Der Heide, U. A., Lips, I. M., Van Vulpen, M., Staring, M., & Pluim, J. P. W. (2008). Automatic segmentation of the prostate in 3D MR images by atlas matching using localized mutual information. Medical Physics, 35(4), 1407–1417.
  74. Klein, S., Staring, M., & Pluim, J. P. W. (2007). Evaluation of optimization methods for nonrigid medical image registration using mutual information and B-splines. IEEE Transactions on Image Processing, 16(12), 2879–2890.
  75. Staring, M., Klein, S., & Pluim, J. P. W. (2007). A rigidity penalty term for nonrigid registration. Medical Physics, 34(11), 4098–4108.
  76. Staring, M., Klein, S., & Pluim, J. P. W. (2007). Nonrigid registration with tissue-dependent filtering of the deformation field. Physics in Medicine and Biology, 52(23), 6879.

Conference Articles

  1. Gunay, G., van der Voort, S., Luu, M. H., Moelker, A., & Klein, S. (2017). Parameter Sensitivity Analysis in Medical Image Registration Algorithms Using Polynomial Chaos Expansions. In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 335–343). Springer, Cham.
  2. Marstal, K., & Klein, S. (2017). Active Registration Models. In SPIE Medical Imaging (pp. 101330Y–101330Y). International Society for Optics and Photonics.
  3. Polfliet, M., Klein, S., Niessen, W. J., & Vandemeulebroucke, J. (2017). Laplacian eigenmaps for multimodal groupwise image registration. In SPIE Medical Imaging (pp. 101331N–101331N). International Society for Optics and Photonics.
  4. Venkatraghavan, V., Bron, E. E., Niessen, W. J., & Klein, S. (2017). A Discriminative Event Based Model for Alzheimer’s Disease Progression Modeling. In International Conference on Information Processing in Medical Imaging (pp. 121–133). Springer, Cham.
  5. van der Voort, S. R., Gahrmann, R., van den Bent, M. J., Vincent, A. J. P. E., Niessen, W. J., Smits, M., & Klein, S. (2017). Radiogenomic classification of the 1p/19q status in presumed low-grade gliomas. In Biomedical Imaging (ISBI 2017), 2017 IEEE 14th International Symposium on (pp. 638–641). IEEE.
  6. Berendsen, F. F., Marstal, K., Klein, S., & Staring, M. (2016). The Design of SuperElastix–A Unifying Framework for a Wide Range of Image Registration Methodologies. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops (pp. 58–66).
  7. Gunay, G., Luu, H. M., van Walsum, T., & Klein, S. (2016). Semi-automated registration of pre-and intra-operative liver CT for image-guided interventions. In Medical Imaging: Image Processing (p. 97841N).
  8. Guyader, J.-M., Huizinga, W., Fortunati, V., Poot, D. H. J., van Kranenburg, M., Veenland, J. F., … Klein, S. (2016). Total correlation-based groupwise image registration for quantitative MRI. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops (pp. 186–193).
  9. Huizinga, W., Poot, D. H. J., Roshchupkin, G., Bron, E. E., Ikram, M. A., Vernooij, M. W., … Klein, S. (2016). Modeling the brain morphology distribution in the general aging population. In Proc. SPIE (Vol. 9788, p. 978801). https://doi.org/10.1117/12.2207228
  10. Marstal, K., Berendsen, F., Staring, M., & Klein, S. (2016). SimpleElastix: A user-friendly, multi-lingual library for medical image registration. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops (pp. 134–142).
  11. Polfliet, M., Klein, S., Huizinga, W., de Mey, J., & Vandemeulebroucke, J. (2016). The pythagorean averages as group images in efficient groupwise registration. In Biomedical Imaging (ISBI), 2016 IEEE 13th International Symposium on (pp. 1261–1264). IEEE.
  12. Guyader, J.-M., Huizinga, W., Fortunati, V., Veenland, J. F., Paulides, M. M., Niessen, W. J., & Klein, S. (2015). Groupwise image registration of multimodal head-and-neck images. In Biomedical Imaging (ISBI), 2015 IEEE 12th International Symposium on (pp. 730–733). IEEE.
  13. Koek, M., Achterberg, H., de Groot, M., Vast, E., Klein, S., & Niessen, W. (2015). Population Imaging Study IT Infrastructure: An Automated Continuous Workflow Approach. In 1st MICCAI Workshop on MAnagement and Processing of images for Population ImagiNG - MAPPING (p. 31).
  14. Pai, A., Klein, S., Sommer, S., Sørensen, L., Darkner, S., Sporring, J., & Nielsen, M. (2015). Adaptive time-stepping in diffeomorphic image registration with bounded inverse consistency error. In Mathematical Foundations of Computational Anatomy (p. 35).
  15. Pai, A., Klein, S., Sommer, S., Darkner, S., Sporring, J., & Nielsen, M. (2015). Diffeomorphic image registration with automatic time-step adjustment. In Biomedical Imaging (ISBI), 2015 IEEE 12th International Symposium on (pp. 1085–1088). IEEE.
  16. Ragheb, H., Thacker, N. A., Guyader, J.-M., Klein, S., & Jackson, A. (2015). An efficient motion correction method for improved ADC estimates in the abdomen. In Proc. Int’l Soc. Magnetic Resonance in Medicine (pp. 1–5).
  17. Akkus, Z., Carvalho, D. D. B., Klein, S., van den Oord, S. C. H., Schinkel, A. F. L., de Jong, N., … Bosch, J. G. (2014). Atherosclerotic carotid lumen segmentation in combined B-mode and contrast enhanced ultrasound images. In Medical Imaging: Image Processing (p. 903445).
  18. Akkus, Z., de Jong, N., van der Steen, A. F. W., Bosch, J. G., van den Oord, S. C. H., Schinkel, A. F. L., … Klein, S. (2014). Fully automated carotid plaque segmentation in combined B-mode and contrast enhanced ultrasound. In Ultrasonics Symposium (IUS), 2014 IEEE International (pp. 911–914). IEEE.
  19. Bron, E., Smits, M., van Swieten, J., Niessen, W., & Klein, S. (2014). Feature selection based on SVM significance maps for classification of dementia. In International Workshop on Machine Learning in Medical Imaging (pp. 272–279). Springer, Cham.
  20. Carvalho, D. D. B., Akkus, Z., Bosch, J. G., van den Oord, S. C. H., Niessen, W. J., & Klein, S. (2014). Nonrigid motion compensation in B-mode and contrast enhanced ultrasound image sequences of the carotid artery. In SPIE Medical Imaging (pp. 90340N–90340N). International Society for Optics and Photonics.
  21. Guyader, J.-M., Bernardin, L., Douglas, N. H. M., Poot, D. H. J., Niessen, W. J., & Klein, S. (2014). Influence of image registration on ADC images computed from free-breathing diffusion MRIs of the abdomen. In SPIE Medical Imaging (pp. 90340O–90340O). International Society for Optics and Photonics.
  22. Huizinga, W., Klein, S., & Poot, D. H. J. (2014). Fast multidimensional B-spline interpolation using template metaprogramming. In International Workshop on Biomedical Image Registration (pp. 11–20). Springer, Cham.
  23. Huizinga, W., Metz, C. T., Poot, D. H. J., de Groot, M., Niessen, W. J., Leemans, A., & Klein, S. (2014). Groupwise registration for correcting subject motion and eddy current distortions in diffusion MRI using a PCA based dissimilarity metric. In Computational Diffusion MRI and Brain Connectivity (pp. 163–174). Springer International Publishing.
  24. Sun, W., Niessen, W. J., & Klein, S. (2014). Free-form deformation using lower-order B-spline for nonrigid image registration. In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 194–201). Springer, Cham.
  25. Sun, W., Niessen, W. J., & Klein, S. (2014). Randomly perturbed free-form deformation for nonrigid image registration. In International Workshop on Biomedical Image Registration (pp. 62–71). Springer, Cham.
  26. Sun, W., Niessen, W. J., & Klein, S. (2014). Wavelet based free-form deformations for nonrigid registration. In Medical Imaging: Image Processing (p. 90343N).
  27. Haak, A., Vegas-Sanchez-Ferrero, G., Mulder, H. H., Kirisli, H. A., Baka, N., Metz, C., … others. (2013). Segmentation of 3D transesophageal echocardiograms by multi-cavity active shape model and gamma mixture model. In Augmented Reality Environments for Medical Imaging and Computer-Assisted Interventions (pp. 19–26). Springer, Berlin, Heidelberg.
  28. Haak, A., Vegas-Sanchez-Ferrero, G., Mulder, H. H., Kirisli, H. A., Baka, N., Metz, C., … others. (2013). Simultaneous segmentation of multiple heart cavities in 3D transesophageal echocardiograms. In Ultrasonics Symposium (IUS), 2013 IEEE International (pp. 659–662). IEEE.
  29. Lorza, A. M. A., Carvalho, D. D. B., Petersen, J., van Dijk, A. C., van der Lugt, A., Niessen, W. J., … de Bruijne, M. (2013). Carotid artery lumen segmentation in 3D free-hand ultrasound images using surface graph cuts. In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 542–549). Springer, Berlin, Heidelberg.
  30. Poot, D. H. J., Kotek, G., Niessen, W. J., Klein, S., & Erasmus, M. C. (2013). Bias correction of maximum likelihood estimation in quantitative MRI. In Medical Imaging: Image Processing (p. 86691F).
  31. Vijayan, S., Klein, S., Hofstad, E. F., Lindseth, F., Ystgaard, B., & Langö, T. (2013). Validation of a non-rigid registration method for motion compensation in 4D ultrasound of the liver. In Biomedical Imaging (ISBI), 2013 IEEE 10th International Symposium on (pp. 792–795). IEEE.
  32. Carvalho, D. D. B., Klein, S., Akkus, Z., Gerrit, L., Tang, H., Selwaness, M., … Niessen, W. J. (2012). Registration of Free-Hand Ultrasound and MRI of Carotid Arteries through Combination of Point-Based and Intensity-Based Algorithms. In International Workshop on Biomedical Image Registration (pp. 131–140).
  33. van Engelen, A., Niessen, W. J., Klein, S., Groen, H. C., Verhagen, H. J. M., Wentzel, J. J., … de Bruijne, M. (2012). Supervised in-vivo plaque characterization incorporating class label uncertainty. In Biomedical Imaging (ISBI), 2012 9th IEEE International Symposium on (pp. 246–249). IEEE.
  34. RM, E. S., Houston, G. V., Van Swieten, J. C., Hammers, A., Smits, M., Klein, S., & others. (2012). Classification of early-stage presenile dementia based on arterial spin labeling and structural MRI. In 15th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) 2012 (p. 13).
  35. Firouzian, A., Manniesing, R., Metz, C. T., Klein, S., Velthuis, B. K., Rinkel, G. J. E., … Niessen, W. J. (2012). Intracranial aneurysm growth quantification in CTA. In Medical Imaging: Image Processing (p. 831448).
  36. Gouveia, A. R., Metz, C., Freire Luı́s, & Klein, S. (2012). 3D-2D image registration by nonlinear regression. In Biomedical Imaging (ISBI), 2012 9th IEEE International Symposium on (pp. 1343–1346). IEEE.
  37. Gouveia, A. I. R., Metz, C., Freire Luı́s, & Klein, S. (2012). Comparative evaluation of regression methods for 3D-2D image registration. In International Conference on Artificial Neural Networks (pp. 238–245). Springer, Berlin, Heidelberg.
  38. Haak, A., van Stralen, M., van Burken, G., Klein, S., Pluim, J. P. W., de Jong, N., … Bosch, J. G. (2012). Comparison of spatiotemporal interpolators for 4D image reconstruction from 2D transesophageal ultrasound. In SPIE Medical Imaging (pp. 832007–832007). International Society for Optics and Photonics.
  39. Haak, A., Klein, S., van Burken, G., de Jong, N., Van der Steen, A. F. W., Bosch, J. G., … Pluim, J. P. W. (2012). Optimal kernel sizes for 4D image reconstruction using normalized convolution from sparse fast-rotating transesophageal 2D ultrasound images. In Ultrasonics Symposium (IUS), 2012 IEEE International (pp. 703–706). IEEE.
  40. Niessen, W., Vrooman, H., de Boer, R., van der Lijn, F., Achterberg, H., Koek, M., … others. (2012). Quantitative imaging biomarkers in neurologic disease: Population study perspective. In Biomedical Imaging (ISBI), 2012 9th IEEE International Symposium on (pp. 911–911). IEEE.
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  42. Terzopoulos, V., Achterberg, H. C., Plaisier, A., Heemskerk, A. M., de Groot, M., Poot, D., … Klein, S. (2012). A 3D atlas of MR diffusion parameters in the neonatal brain. In Medical Image Computing and Computer-Assisted Intervention.
  43. Haak, A., van Stralen, M., van Burken, G., Klein, S., Pluim, J. P. W., de Jong, N., … Bosch, J. G. (2011). Spatiotemporal interpolation by normalized convolution for 4D transesophageal echocardiography. In Ultrasonics Symposium (IUS), 2011 IEEE International (pp. 152–155). IEEE.
  44. Klein, S., Staring, M., Andersson, P., & Pluim, J. P. W. (2011). Preconditioned stochastic gradient descent optimisation for monomodal image registration. In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 549–556). Springer, Berlin, Heidelberg.
  45. Metz, C., Schaap, M., Klein, S., Rijnbeek, P., Neefjes, L., Mollet, N., … van Walsum, T. (2011). Alignment of 4D coronary CTA with monoplane X-ray angiography. In Workshop on Augmented Environments for Computer-Assisted Interventions (pp. 106–116). Springer, Berlin, Heidelberg.
  46. Smal, I., Carranza-Herrezuelo Noemı́, Klein, S., Niessen, W., & Meijering, E. (2011). Quantitative comparison of tracking methods for motion analysis in tagged MRI. In Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on (pp. 345–348). IEEE.
  47. Smal, I., Carranza-Herrezuelo Noemı́, Klein, S., Niessen, W., & Meijering, E. (2011). Trans-dimensional MCMC methods for fully automatic motion analysis in tagged MRI. In Medical Image Computing and Computer-Assisted Intervention–MICCAI 2011 (pp. 573–580). Springer Berlin/Heidelberg.
  48. Tang, H., Van Walsum, T., Van Onkelen, R. S., Klein, S., Hameeteman, R., Schaap, M., … others. (2011). Multispectral MRI centerline tracking in carotid arteries. In SPIE Medical Imaging (pp. 79621N–79621N). International Society for Optics and Photonics.
  49. Van Der Bom, I. M. J., Klein, S., Staring, M., Homan, R., Bartels, L. W., & Pluim, J. P. W. (2011). Evaluation of optimization methods for intensity-based 2D-3D registration in X-ray guided interventions. In Medical Imaging: Image Processing (Vol. 7962, p. 796223). SPIE.
  50. van Engelen, A., de Bruijne, M., Klein, S., Verhagen, H., Groen, H., Wentzel, J., … Niessen, W. (2011). Plaque characterization in ex vivo MRI evaluated by dense 3D correspondence with histology. In R. M. Summers & B. van Ginneken (Eds.), Medical Imaging 2011 (Vol. Part One). SPIE - International Society for Optical Engineering. https://doi.org/10.1117/12.878007
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  52. Farago, T., Nikolov, H., Klein, S., Reiber, J. H. C., & Staring, M. (2010). Semiautomatic parallelisation for iterative image registration with B-splines. In Proc. Second Int. Workshop on High-Performance Medical Image Computing for Image-Assisted Clinical Intervention and Decision-Making (HP-MICCAI10), Beijing, China.
  53. Isola, A. A., Metz, C. T., Schaap, M., Klein, S., Niessen, W. J., & Grass, M. (2010). Coronary segmentation based motion corrected cardiac CT reconstruction. In Nuclear Science Symposium Conference Record (NSS/MIC), 2010 IEEE (pp. 2026–2029). IEEE.
  54. Kirisli, H. A., Schaap, M., Klein, S., Neefjes, L., Weustink, A. C., Van Walsum, T., & Niessen, W. J. (2010). Fully automatic cardiac segmentation from 3D CTA data: a multi-atlas based approach. In Medical Imaging: Image Processing (p. 762305).
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  58. van der Lijn, F., de Bruijne, M., Hoogendam, Y. Y., Klein, S., Hameeteman, R., Breteler, M. M. B., & Niessen, W. J. (2009). Cerebellum segmentation in MRI using atlas registration and local multi-scale image descriptors. In Biomedical Imaging: From Nano to Macro, 2009. ISBI’09. IEEE International Symposium on (pp. 221–224). IEEE.
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Abstracts

  1. Bron, E. E., Young, A. L., Oxtoby, N. P., Smits, M., van Swieten, J. C., Wink, A. M., … Alexander, D. C. (2016). Cross-Sectional Modeling of Regional Perfusion and Gray Matter Volume in Alzheimer’s Disease. In Alzheimer’s Association International Conference (AAIC).
  2. Eijgenraam, S., Verschueren, J., Bron, E. E., Reijman, M., Klein, S., Wielopolski, P. A., … Oei, E. H. G. (2016). Cartilage T2 relaxation times: reproducibility in a multicenter trial. In 9th International Workshop on Osteoarthritis Imaging.
  3. Hansson, N. M., Achterberg, H. C., Oei, E. H. G., & Klein, S. (2016). Evaluation of two multi-atlas cartilage segmentation models for knee MRI: data from the Osteoarthritis Initiative. In 9th International Workshop on Osteoarthritis Imaging.
  4. van der Heijden, R. A., Poot, D. H., Ekinci, M., van Veldhoven, P. L., Klein, S., Verhaar, J. A., … Oei, E. (2016). Blood perfusion of patellar bone measured with dynamic contrast enhanced MRI in patients with patellofemoral pain. In Osteoarthritis and Cartilage (Vol. 24, p. S312). Elsevier.
  5. van der Heijden, R. A., Poot, D. H. J., Ekinci, M., Bron, E. E., van Tiel, J., Klein, S., … Oei, E. H. G. (2016). Multiparametric quantitative MRI of cartilage composition and bone blood perfusion applied in a case-control study of patellofemoral pain. In International Society for Magnetic Resonance in Medicine.
  6. van Hespen, K. M., Poot, D. H. J., Nieuwstadt, H. A., & Klein, S. (2016). Resolving ambiguity in T1 mapping using complex MRI data. In International Society for Magnetic Resonance in Medicine.
  7. Schrantee, A., Bron, E. E., Mutsaerts, H., Klein, S., Niessen, W. J., Rombouts, S. A. R. B., & Reneman, L. (2016). Assessing the effects of methylphenidate on human brain development using pharmacological magnetic resonance imaging: a randomized controlled trial. In International Society for Magnetic Resonance in Medicine.
  8. Verschueren, J., van Tiel, J., Bron, E. E., Klein, S., Verhaar, J. A., Bierma-Zeinstra, S. M., … Oei, E. H. (2016). Influence of the delayed gadolinium enhanced MRI of cartilage protocol on T2 relaxation times of knee cartilage in healthy volunteers and osteoarthritis patients. In Osteoarthritis and Cartilage (Vol. 24, pp. S313–S314). Elsevier.
  9. Bron, E. E., Smits, M., Papma, J. M., Steketee, R. M. E., Meijboom, R., de Groot, M., … Klein, S. (2015). Perfusion and diffusion tensor MRI improve computer-aided differentiation between Alzheimer’s disease and frontotemporal dementia. In 32nd Annual Scientific Meeting of the ESMRMB.
  10. Bron, E. E., Smits, M., Barkhof, F., Bastos-Leite, A. J., van Swieten, J. C., Niessen, W. J., & Klein, S. (2015). Large-scale objective comparison of 29 novel algorithms for computer-aided diagnosis of dementia based on structural MRI. In European Congress of Radiology.
  11. van der Heijden, R. A., Vissers, P. P., Bron, E. E., van Veldhoven, P. L., Klein, S., Verhaar, J. A., … van Middelkoop, M. (2015). T1ρand T2 mapping MRI show no difference in cartilage composition between patients with patellofemoral pain and healthy control subjects. In Osteoarthritis and Cartilage (Vol. 23, pp. A308–A309). Elsevier.
  12. van der Heijden, R. A., Vissers, P., van Veldhoven, P. L. J., Bron, E. E., Klein, S., Verhaar, J., … Bierma-Zeinstra, S. M. A. (2015). T1rho and T2 mapping MRI show no difference in cartilage composition between patients with patellofemoral pain and healthy control subjects. In Sports Medicine Congress.
  13. van der Heijden, R. A., Vissers, P., Bron, E. E., van Veldhoven, P. L. J., Klein, S., Verhaar, J., … Oei, E. (2015). Multiparametric quantitative MRI shows no difference in cartilage composition between patients with patellofemoral pain and healthy control subjects. In 101th Annual Meeting of the Radiological Society of North America.
  14. Nieuwstadt, H., Poot, D. H. J., de Leeuw, H., van der Lugt, A., Coolen, B. F., Nederveen, A. J., & Klein, S. (2015). Volumetric T1 and T2 mapping of the carotid artery wall using 3D fast spin echo with variable refocusing flip angles. In 32nd Annual Scientific Meeting of the ESMRMB.
  15. Ragheb, H., Thacker, N. A., Guyader, J.-M., Klein, S., & Jackson, A. (2015). An efficient motion correction method for improved ADC estimates. In International Society for Magnetic Resonance in Medicine.
  16. Salim, G., Poot, D. H. J., Numan, W., Vogel, M., Drizdal, T., Paulides, M. M., & Klein, S. (2015). Multipeak multiecho modeling for improved PRF-based thermometry. In 32nd Annual Scientific Meeting of the ESMRMB.
  17. Vast, E., & Klein, S. (2015). Centralized correlative analysis between image-derived data from XNAT and clinical data in tranSMART. In tranSMART Foundation Annual Meeting.
  18. Verschueren, J., Meuffels, D. E., Bron, E. E., Klein, S., Kleinrensink, G., Verhaar, J., … Oei, E. (2015). Titanium fixation devices do not influence T2 relaxation times of knee articular cartilage after high tibial osteotomy: a human cadaver study. In 101th Annual Meeting of the Radiological Society of North America.
  19. Verschueren, J., Meuffels, D. E., Bron, E. E., Klein, S., Kleinrensink, G., Verhaar, J., … Oei, E. (2015). Challenges for implementation of T2-mapping in a large clinical trial of high tibial osteotomy: A human cadaver study to assess the feasibility of T2-mapping MRI near metal. In International Society for Magnetic Resonance in Medicine (ISMRM) workshop - Imaging Based Measures of Osteoarthritis.
  20. Verschueren, J., Bostamzad, P., Bron, E. E., Klein, S., Verhaar, J., Bierma-Zeinstra, S. M. A., … Oei, E. (2015). Influence of exercise and waiting time required for dGEMRIC on T2 relaxation times of knee cartilage at 3T. In International Society for Magnetic Resonance in Medicine (ISMRM) workshop - Imaging Based Measures of Osteoarthritis.
  21. Coolen, B. F., Smit, H., Poot, D. H. J., Kotek, G., Klein, S., & Nederveen, A. (2014). 3D T1 and T2 mapping of the carotid vessel wall using variable alpha and variable TE iMSDE black-blood imaging. In International Society for Magnetic Resonance in Medicine.
  22. van der Heijden, R. A., Poot, D. H. J., Bron, E. E., Klein, S., Verhaar, J., Bierma-Zeinstra, S. M. A., … Oei, E. (2014). Dynamic contrast enhanced MRI in patellofemoral pain syndrome: perfusion quantification of patellofemoral joint tissues. In European Congress of Radiology.
  23. van Tiel, J., Kotek, G., Reijman, M., Bos, P. K., Bron, E. E., Klein, S., … Oei, E. H. (2014). Delayed gadolinium-enhanced MRI of cartilage (dGEMRIC) is superior to t1rho-mapping in measuring cartilage sulphated glycosaminoglycan content: preliminary results of an in-vivo validation study using an ex-vivo reference standard for cartilage sulphated glycosaminoglycan content. In Osteoarthritis and Cartilage (Vol. 22, pp. S250–S251). Elsevier.
  24. van Tiel, J., Kotek, G., Reijman, M., Bos, P. K., Klein, S., Verhaar, J., … Oei, E. (2014). Delayed gadolinium-enhanced MRI of the Meniscus (dGEMRIM) in patients with knee osteoarthritis: relation with meniscal degeneration on conventional MRI, reproducibility, and correlation with dGEMRIC. In European Congress of Radiology.
  25. van Tiel, J., Kotek, G., Reijman, M., Bos, P. K., Klein, S., Verhaar, J., … Oei, E. (2014). Delayed gadolinium-enhanced MRI of cartilage is superior to T1rho-mapping in measuring cartilage sulphated glycosaminoglycan content: preliminary results of an in vivo validation study. In European Congress of Radiology.
  26. Vast, E., & Klein, S. (2014). Sharing and integrating medical imaging data. In BioMedBridges Second Annual General Meeting.
  27. Vast, E., Koek, M., de Groot, M., Achterberg, H. C., Dekker, A., van Soest, J., … Klein, S. (2014). Sharing medical imaging data for multi-center studies. In EUDAT 3rd Conference.
  28. Verschueren, J., van Tiel, J., Reijman, M., Bron, E. E., Klein, S., Verhaar, J., … Oei, E. (2014). T2 relaxation times of knee articular cartilage in osteoarthritis patients are not influenced by gadolinium contrast agent. In 100th Annual Meeting of the Radiological Society of North America.
  29. Bron, E. E., Steketee, R. M. E., Houston, G. C., Oliver, R., van Swieten, J. C., Hammers, A., … Klein, S. (2013). The added value of arterial spin labeling for classification of early-stage presenile dementia. In 19th Annual Meeting of the Organization for Human Brain Mapping (OHBM) 2013.
  30. de Groot, M., Verhaaren, de Boer, R., Klein, S., Hofman, A., van der Lugt, A., … Vernooij, M. W. (2013). Development of white matter lesions is preceded by changes in normal-appearing white matter. In AAIC 2013: Alzheimer’s Association International Conference.
  31. Guyader, J.-M., Bernardin, L., Douglas, N. H. M., Poot, D. H. J., Niessen, W. J., & Klein, S. (2013). Influence of image registration on the quality of computed apparent diffusion coefficients (ADC) in free-breathing diffusion MRI of the abdomen. In ESMRMB: European Society for Magnetic Resonance in Medicine and Biology.
  32. Guyader, J.-M., Bernardin, L., Douglas, N. H. M., Poot, D. H. J., Niessen, W. J., & Klein, S. (2013). Influence of image registration on the quality of computed apparent diffusion coefficients in free-breathing diffusion MRI of the abdomen. In NVPHBV Spring meeting.
  33. Smit, H., de Leeuw, H., Guridi, R. P., Poot, D. H. J., Vogel, M., van der Lugt, A., … Kotek, G. (2013). T2 mapping in the carotid artery with T2 prepared signal stabilized 3D fast spin echo. In ESMRMB.
  34. van Tiel, J., Bron, E. E., Bos, P. K., Klein, S., Reijman, M., Verhaar, J., … Oei, E. (2013). Correlation between quantitative delayed contrast-enhancement in meniscus and cartilage in knee osteoarthritis. In International Society for Magnetic Resonance in Medicine.
  35. Bron, E. E., Steketee, R. M. E., Houston, G., van Swieten, J. C., Hammers, A., Niessen, W. J., … Klein, S. (2012). Region-Wise Classification of Early-Stage Presenile Dementia Based on Arterial Spin Labeling (ASL). In ISMRM Scientific Workshop on Perfusion MRI: Standardization, Beyond CBF & Everyday Clinical Applications.
  36. van ’t Klooster, R., Staring, M., Klein, S., Kwee, R. M., Kooi, M. E., Reiber, J. H. C., … van der Geest, R. J. (2012). Automatic Registration of Multispectral MR Vessel Wall Images of the Carotid Artery. In International Society for Magnetic Resonance in Medicine.
  37. Langö, T., Klein, S., Lindseth, F., Vijayan, S., Hofstad, E. H., Muller, S., & Ystgaard, B. (2012). Motion estimation from 4D (3D+time) ultrasound of the liver and kidney. In SMIT.
  38. Smit, H., van Tiel, J., Bron, E. E., Poot, D. H. J., Houston, G., Niessen, W. J., … Kotek, G. (2012). Knee cartilage T1 mapping with High Resolution Multi Slice Inversion Recovery: feasibility, reproducibility and accuracy. In International Society for Magnetic Resonance in Medicine.
  39. Smit, H., Ruggiero, A., Doeswijk, G. N., Milanesi, M., Houston, G., Krestin, G. P., … Kotek, G. (2012). Reproducibility of myocardial T1 estimation with modified CINE-IR in rat myocardium at 7T. In International Society for Magnetic Resonance in Medicine.
  40. Steketee, R. M. E., Houston, G., Van Swieten, J. C., Hammers, A., Smits, M., Klein, S., & others. (2012). Region-wise classification of early-stage presenile dementia based on Arterial Spin Labeling (ASL). In ISMRM 2012 workshop "Perfusion MRI: Standardization, beyond CBF & everyday clinical applications".
  41. van Tiel, J., Bron, E. E., Bos, P. K., Klein, S., Reijman, M., Verhaar, J. A., … Oei, E. H. (2012). Reproducibility of 3D delayed gadolinium enhanced MRI of cartilage (DGEMRIC) of the knee at 3.0 Tesla in patients with early-stage osteoarthritis. In Osteoarthritis and Cartilage (Vol. 20, pp. S230–S231). WB Saunders.
  42. van Tiel, J., Bron, E. E., Bos, P. K., Reijman, M., Klein, S., Verhaar, J., … Oei, E. (2012). Reproducibility of 3D Delayed Gadolinium Enhanced MRI of Cartilage of the Knee at 3.0 Tesla in Patients with Early-Stage Osteoarthritis. In Radiological Society of North America, 98th Annual Meeting.
  43. Van der Werf, R., Van Buul, G. M., Smit, H., Houston, G. C., Krestin, G. P., Klein, S., … Kotek, G. (2012). Visualization of SPIO labeled mesenchymal stem cells in knee joints by R2* mapping. In Proc. Intl. Soc. Mag. Reson. Med. (ISMRM) 20.
  44. Alic, L., Haeck, J., Klein, S., Bol, K., Niessen, W. J., Bijster, M., … Veenland, J. F. (2011). Validation of MRI by accurate matching with histology. In BME 2011: 3th Dutch Conference on Bio-Medical Engineering.
  45. Carvalho, D. D. B., Klein, S., van den Bouwhuijsen, Q. J. A., van der Lugt, A., & Niessen, W. J. (2011). Registration of MRI and US images in cardiovascular imaging. In BME2011: 3rd Dutch conference on Biomedical Engineering.
  46. van Engelen, A., de Bruijne, M., Klein, S., Groen, H. C., Wentzel, J. J., van der Lugt, A., & Niessen, W. J. (2011). Plaque characterization in ex vivo MRI evaluated by dense 3D correspondence with histology. In BME 2011: 3rd Dutch conference on Biomedical Engineering.
  47. Kotek, G., Smit, H., Klein, S., Doeswijk, G. N., Krestin, G. P., & Bernsen, M. (2011). Feasibility of R2 Mapping for SPIO Labelled Cell Tracking in Rat Myocardium at 7.0 T. In Radiological Society of North America, 97th Annual Meeting.
  48. Shahzad, R., Schaap, M., van Walsum, T., Klein, S., Weustink, A. C., van Vliet, L. J., & Niessen, W. J. (2011). Coronary Artery Density Estimate for Calcium Scoring in CT Scans. In BME 2011: 3th Dutch Conference on Bio-Medical Engineering Conference.
  49. Shahzad, R., van Walsum, T., Schaap, M., Klein, S., van Vliet, L. J., & Niessen, W. J. (2011). Vessel-specific coronary artery calcium scoring: an automatic method. In NVPHBV, Spring Meeting.
  50. Smit, H., Bron, E. E., Kotek, G., Poot, D. H. J., van Tiel, J., Oei, E., & Klein, S. (2011). Image Registration improves the Accuracy of T1 mapping in the Cartilage of the Human Knee. In Radiological Society of North America, 97th Annual Meeting.
  51. Tang, H., van Walsum, T., van Onkelen, R. S., Klein, S., Hameeteman, K., Schaap, M., … Niessen, W. J. (2011). Carotid Artery Centerline Tracking in Multispectral MRA. In NVPHBV.
  52. Alic, L., Haeck, J. C., Klein, S., Bol, K., Bijster, M., Niessen, W. J., … de Jong, M. (2010). Correlation of MRI with histology using non rigid registration. In ECR 2010: European Congress of Radiology.
  53. Isola, A. A., Metz, C. T., Schaap, M., Klein, S., Niessen, W. J., & Grass, M. (2010). Coronary Segmentation Based Motion Corrected Cardiac CT Reconstruction. In IEEE NSS-MIC Conference Record.
  54. Alic, L., Haeck, J. C., van Tiel, S. T., Wielopolski, P. A., Bijster, M., Klein, S., … Veenland, J. F. (2009). Matching MRI with histology: does elastic registration help? In ESMI: 4th European Molecular Imaging Meeting.
  55. Chmarra, M. K., Klein, S., de Winter, J. C. F., Jansen, F. W., & Dankelman, J. (2009). How to objectively classify residents based on their psychomotor laparoscopic skills? In BME2009: 2nd Dutch Conference on Bio-Medical Engineering.
  56. Groen, H. C., van Walsum, T., Gijsen, F. J. H., Rozie, S., Klein, S., van Gaalen, K., … Wentzel, J. J. (2009). Fusion of histology and shear stress based on in vivo images. In ASME 2009 Summer Bioengineering Conference (pp. 1133–1134). American Society of Mechanical Engineers.
  57. Groen, H. C., van Walsum, T., Gijsen, F. J. H., Rozie, S., Klein, S., van Gaalen, K., … Niessen, W. J. (2009). Fusion of histology and shear stress derived from in vivo images. In BME2009: 2nd Dutch Conference on Bio-Medical Engineering.
  58. Groot, M. D., Vernooij, M. W., Klein, S., Leemans, A., de Boer, R., van der Lugt, A., … Niessen, W. (2009). Asymmetry analysis along the entire cingulum in the general population. In 15th Annual Meeting of Organization for Human Brain Mapping. San Francisco, USA.
  59. de Groot, M., Vernooij, M. W., Klein, S., Leemans, A., de Boer, R., van der Lugt, A., … Niessen, W. J. (2009). Asymmetry analysis along the entire cingulum in the general population. In HBM 2009: 15th Annual Meeting of the Organization for Human Brain Mapping, pages S105.
  60. Metz, C. T., Schaap, M., Klein, S., Capuano, E., Neefjes, L., van Walsum, T., & Niessen, W. J. (2009). Extracting coronary artery motion from ECG-pulsed and gated CTA data. In Radiological Society of North America (RSNA), 95th Annual Meeting.
  61. Veenland, J. F., Haeck, J. C., Alic, L., van Tiel, S. T., Klein, S., Wielopolski, P. A., … de Jong, M. (2009). Correlation of MRI with histology: a method based on non-rigid registration. In ESMRMB 2009: 26th Annual Scientific Meeting.
  62. Verhaaren, B. F. J., van der Lijn, F., Klein, S., van der Lugt, A., Niessen, W. J., & Breteler, M. M. B. (2009). Automated classification of periventricular and subcortical white matter lesions on MRI. In Alzheimer’s Association International Conference on Alzheimer’s Disease in: Alzheimer’s & Dementia, pages P293-P294.
  63. Chmarra, M. K., Klein, S., de Winter, J. C. F., Jansen, F. W., & Dankelman, J. (2008). Expert, resident or novice - How to classify surgeons objectively? In EAES 2008, Stockholm.
  64. Staring, M., Pluim, J. P. W., de Hoop, B., Klein, S., & Prokop, M. (2008). Subtraction imaging for improved detection of change in ground glass nodules in chest computed tomography. In European Radiology Supplements (Vol. 18, supplement 1, pp. 137–336). Vienna, Austria.

Miscellaneous

  1. Dekker, A., Van Soest, J., Klein, S., Hoekstra, R., Groot, P., Vast, E., … Van der Lugt, A. (2015). BMIA - nationaal biomedisch imaging archief voor onderzoek. MemoRad 20(2): 7-10.
  2. Klein, S., Vast, E., Van Soest, J., Dekker, A., Koek, M., & Niessen, W. J. (2015). XNAT imaging platform for BioMedBridges and CTMM TraIT. Journal of Clinical Bioinformatics, 5 (Suppl 1), S18.

Technical Reports

  1. Plaisier, A., Achterberg, H., de Groot, M., Leemans, A., Reiss, I. K. M., Niessen, W. J., … Klein, S. (2014). Standardized Workflow for Constructing a Site-Specific DTI Template of the Preterm Brain (p. 107). Erasmus MC. Retrieved from https://repub.eur.nl/pub/50825/140325_Plaisier-Annemarie.pdf