Research Deep Learning in Medical Imaging

Academia Partners

Team

Internal Members

Christoph Baur

Mai Bui

Sai Gokul Hariharan

Anees Kazi

Roger Soberanis

Azade Farshad

Tariq Bdair

Ashkan Khakzar

External Members and Collaborators

Hasan Sarhan

Amal Lahiani

Agnieszka Tomczak

Research Themes

Research Projects in Medical Imaging

Recent Publications

2020
	, A. Kazi, S. Albarqouni, , P. Biberthaler, N. Navab, , D. Mateus Precise proximal femur fracture classification for interactive training and surgical planning Int. J. Comput. Assist. Radiol. Surg. 2020, 15(5), pp.847-857. (bib)
	R.D. Soberanis-Mukul, N. Navab, S. Albarqouni An Uncertainty-Driven GCN Refinement Strategy for Organ Segmentation MIDL 2020 Special Issue at the Journal of Machine Learning for Biomedical Imaging (MELBA), 2020 (bib)
	A. Sadafi, A. Makhro, A. Bogdanova, N. Navab, T. Peng, S. Albarqouni, C. Marr Attention based Multiple Instance Learning for Classification of Blood Cell Disorders International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Lima, Peru, 2020 (bib)
	A. Tran , J. Weiss, S. Albarqouni, S. Faghihroohi, N. Navab Retinal Layer Segmentation Reformulated as OCT Language Processing Medical Image Computing and Computer Assisted Interventions (MICCAI) Lima, Peru, October 2020 (bib)
	C. Baur, R. Graf, B. Wiestler, S. Albarqouni, N. Navab SteGANomaly: Inhibiting CycleGAN? Steganography for Unsupervised Anomaly Detection in Brain MRI Accepted to the Proceedings of the 23rd International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Lima, Peru, October 2020 (bib)
	C. Baur, B. Wiestler, S. Albarqouni, N. Navab Scale-Space Autoencoders for Unsupervised Anomaly Segmentation in Brain MRI Accepted to the Proceedings of the 23rd International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Lima, Peru, October 2020 A pre-print version is available online at arXiv. (bib)
	M. Bui, T. Birdal, H. Deng, S. Albarqouni, L. Guibas, S. Ilic, N. Navab 6D Camera Relocalization in Ambiguous Scenes via Continuous Multimodal Inference Proceedings of European Conference on Computer Vision, 2020, Glasgow (bib)
	R.D. Soberanis-Mukul, N. Navab, S. Albarqouni Uncertainty-based graph convolutional networks for organ segmentation refinement Medical Imaging with Deep Learning (MIDL), 2020 (bib)
	S. Ali, F. Zhou, B. Braden, A. Bailey, S. Yang, G. Cheng, P. Zhang, X. Li, M. Kayser, R.D. Soberanis-Mukul, S. Albarqouni, et al. An objective comparison of detection and segmentation algorithms for artefacts in clinical endoscopy Scientific Reports, 2020 (bib)
	Y. Yeganeh, A. Farshad, N. Navab, S. Albarqouni Inverse Distance Aggregation for Federated Learning with Non-IID Data MICCAI Workshops proceedings with Springer (LNCS) (bib)

2019
	M. Bui, C. Baur, N. Navab, S. Ilic, S. Albarqouni Adversarial Networks for Camera Pose Regression and Refinement Proceedings of the International Conference on Computer Vision Workshops, 27 October - 2 November, 2019, Seoul (bib)
	M. H. Sarhan, S. Albarqouni, N. Navab, A. Eslami Multi-scale Microaneurysms Segmentation Using Embedding Triplet Loss 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Shenzhen, China, 2019 (bib)
	A. Lahiani, N. Navab, S. Albarqouni, E. Klainman Perceptual Embedding Consistency for Seamless Reconstruction of Tilewise Style Transfer 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Shenzhen, China, 2019 (bib)
	A. Khakzar, S. Albarqouni, N. Navab Learning Interpretable Features via Adversarially Robust Optimization 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Shenzhen, China, 2019 (pre-print version is available online at arXiv) (bib)
	A. Kazi, S. Shekarforoush, S. Krishna, H. Burwinkel, G. Vivar, B. Wiestler, K. Kortüm, A. Ahmadi, S. Albarqouni, N. Navab Graph convolution based attention model for personalized disease prediction 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Shenzhen, China, 2019 (bib)
	S. Hariharan, N. Strobel, C. Kaethner, M. Kowarschik, S. Albarqouni, R. Fahrig, N. Navab Learning-based X-ray Image Denoising utilizing Model-based Image Simulations 22nd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Shenzhen, China, 2019 (bib)
	H. Burwinkel, A. Kazi, G. Vivar, S. Albarqouni, G. Zahnd, N. Navab, A. Ahmadi Adaptive image-feature learning for disease classification using inductive graph networks International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Shenzhen, China, 2019 (pre-print version is available online at arXiv) (bib)
	A. Ayyad, N. Navab, M. Elhoseiny, S. Albarqouni Semi-Supervised Few-Shot Learning with Local and Global Consistency Submitted to the 36th International Conference on Machine Learning. A pre-print version is available online at arXiv. (bib)
	C. Baur, S. Albarqouni, N. Navab Fusing Unsupervised and Supervised Deep Learning for White Matter Lesion Segmentation Proceedings of the 2nd International Conference on Medical Imaging with Deep Learning (MIDL), will be held from July 8th to 10th, 2019 in London, United Kingdom. (bib)
	A. Kazi, S. Shekarforoush, S. Krishna, H. Burwinkel, G. Vivar, K. Kortüm, A. Ahmadi, S. Albarqouni, N. Navab InceptionGCN : Receptive Field Aware Graph Convolutional Network for Disease Prediction (Oral) Proceedings of International Conference on Information Processing in Medical Imaging (IPMI), Hong Kong, 2019 (bib)
	A. Kazi, S. Krishna, S. Shekarforoush, K. Kortüm, S. Albarqouni, N. Navab Self-Attention Equipped Graph Convolutions for Disease Prediction (Oral) Proceedings of IEEE International Symposium on Biomedical Imaging (ISBI), Venice, Italy A pre-print version is available online at arXiv. (bib)
	M. T. Shaban, C. Baur, N. Navab, S. Albarqouni StainGAN: Stain Style Transfer for Digital Histological Images Proceedings of IEEE International Symposium on Biomedical Imaging (ISBI), Venice, Italy A pre-print version is available online at arXiv. (bib)
	A. Jiménez-Sánchez, A. Kazi, S. Albarqouni, C. Kirchhoff, , , D. Mateus, C. Kirchhoff Towards an Interactive and Interpretable CAD System to Support Proximal Femur Fracture Classification (pre-print version is available online at arXiv) (bib)

2018
	A. Kazi, A. Jiménez-Sánchez, S. Albarqouni, C. Kirchhoff, , P. Biberthaler, D. Mateus, N. Navab Weakly-Supervised Localization and Classificationof Proximal Femur Fractures (pre-print version is available online at arXiv) (bib)
	M. Degel, N. Navab, S. Albarqouni Domain and Geometry Agnostic CNNs for Left Atrium Segmentation in 3D Ultrasound Proceedings of 21st International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Granada, Spain, September 2018 A pre-print version is available online at arXiv. (bib)
	A. Sanchez, S. Albarqouni, D. Mateus Capsule Networks against Medical Imaging Data Challenges Proceedings of MICCAI Workshop on Large-scale Annotation of Biomedical data and Expert Label Synthesis, Granada, Spain, September 2018 A pre-print version is available online at arXiv. (bib)
	D. Stoyanov, R. Taylor, S. Balocco, R. Sznitman, A. Martel, L. Maier-Hein, L. Duong, G. Zahnd, S. Demirci, S. Albarqouni, J. Lee, S. Moriconi, V. Cheplygina, D. Mateus, E. Trucco, E. Granger, P. Jannin Intravascular Imaging and Computer Assisted Stenting and Large-Scale Annotation of Biomedical Data and Expert Label Synthesis MICCAI 2018 Workshops (bib)
	M. Bui, S. Albarqouni, S. Ilic, N. Navab Scene Coordinate and Correspondence Learning for Image-Based Localization Proceedings of the British Machine Vision Conference, 3-6 September, 2018, Newcastle (Oral presentation) (bib)
	C. Baur, B. Wiestler, S. Albarqouni, N. Navab Deep Autoencoding Models for Unsupervised Anomaly Segmentation in Brain MR Images Accepted to the Proceedings of the Brain Lesion Workshop at the 21th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Granada, Spain, September 2018 A pre-print version is available online at arXiv. (bib)
	C. Baur, S. Albarqouni, N. Navab Generating Highly Realistic Images of Skin Lesions with GANs Accepted to the Proceedings of the ISIC Skin Image Analysis Workshop at the 21th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Granada, Spain, September 2018 A longer pre-print version is available at arXiv. (bib)
	M. Molina-Romero, PA. Gómez, S. Albarqouni, JI. Sperl, MI. Menzel, B. Menze Deep learning with synthetic data for free water elimination in diffusion MRI Proceedings of the International Society of Magnetic Resonance in Medicine (ISMRM), Paris, France, June 2018 (bib)
	M. Bui, S. Zakharov, S. Albarqouni, S. Ilic, N. Navab When Regression meets Manifold Learning for Object Recognition and Pose Estimation Proceedings of IEEE International Conference on Robotics and Automation (ICRA), 21-25 May, 2018, Brisbane, Australia (bib)
	K. Breininger, S. Albarqouni, T. Kurzendorfer, M. Pfister, M. Kowarschik, A. Maier Intraoperative Stent Segmentation in X-ray Fluoroscopy for Endovascular Aortic Repair International Journal of Computer Assisted Radiology and Surgery (IJCARS) (bib)
	C. Baur, S. Albarqouni, N. Navab MelanoGANs: High Resolution Skin Lesion Synthesis with GANs Submitted to the 1st International conference on Medical Imaging with Deep Learning (MIDL), Amsterdam, Netherlands, July 2018 A pre-print version is available online at arXiv. (bib)
	S. Hariharan, N. Strobel, C. Kaethner, M. Kowarschik, S. Demirci, S. Albarqouni, R. Fahrig, N. Navab A photon recycling approach to denoising of ultra-low dose X-ray sequences International Journal of Computer Assisted Radiology and Surgery / 9th International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), Berlin, Germany, June 2018. (bib)

2017
	B. Wiestler, C. Baur, P. Eichinger, , T. Zhang, V. Biberacher, C. Zimmer, , J. Kirschke, S. Albarqouni Fully Automated Multiple Sclerosis lesion detection on multi-channel subtraction images through an integrated Computer Vision- Machine Learning pipeline Clinical Neuroradiolgy (2017) 27:S1-S118 (bib)
	A. Kazi, S. Albarqouni, A. Sanchez, C. Kirchhoff, P. Biberthaler, N. Navab, D. Mateus Automatic Classification of Proximal Femur Fractures based on Attention Models Proceedings of MICCAI Workshop on Machine Learning in Medical Imaging (MLMI), Quebec, Canada, September 2017 (bib)
	J. Cardoso, T. Arbel, J. Lee, V. Cheplygina, S. Balocco, D. Mateus, G. Zahnd, L. Maier-Hein, S. Demirci, E. Granger, L. Duong, M. A. Carbonneau, S. Albarqouni, G. Carneiro Intravascular imaging and computer assisted stenting, and large-scale annotation of biomedical data and expert label synthesis MICCAI 2017 Workshops (bib)
	S. Albarqouni, J. Fotouhi, N. Navab X-ray In-Depth Decomposition: Revealing The Latent Structures Accepted to Proceedings of the 20th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Quebec, Canada, September 2017 A pre-print version is available online at arXiv. (bib)
	M. Bui, S. Albarqouni, M. Schrapp, N. Navab, S. Ilic X-ray PoseNet?: 6 DoF? Pose Estimation for Mobile X-ray Devices Proceedings of IEEE Winter Conference on Applications of Computer Vision (WACV), Mar 24, 2017 - Mar 31, 2017, Santa Rosa, USA The first two authors contribute equally to this paper. (bib)
	C. Baur, S. Albarqouni, N. Navab Semi-Supervised Learning for Fully Convolutional Networks Accepted to Proceedings of the 20th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Quebec, Canada, September 2017 A pre-print version is available online at arXiv. The first two authors contribute equally to this paper. (bib)

2016
	S. Albarqouni, S. Matl, M. Baust, N. Navab, S. Demirci Playsourcing: A Novel Concept for Knowledge Creation in Biomedical Research Proceedings of MICCAI Workshop on Large-scale Annotation of Biomedical data and Expert Label Synthesis, Athens, Greece, October 2016 The first two authors contribute equally to this paper. (bib)
	C. Baur, S. Albarqouni, S. Demirci, N. Navab, P. Fallavollita CathNets: Detection and Single-View Depth Prediction of Catheter Electrodes 7th International Conference on Medical Imaging and Augmented Reality (MIAR), 24-26 August, 2016, Bern, Switzerland. (Best Paper Award) (bib)
	S. Albarqouni, U. Konrad, L. Wang, N. Navab, S. Demirci Single-View X-Ray Depth Recovery: Towards a Novel Concept for Image-Guided Interventions International Journal of Computer Assisted Radiology and Surgery (IJCARS), 2016, June 2016, Volume 11, Issue 6, pp 873-880. (bib)
	S. Albarqouni, C. Baur, F. Achilles, V. Belagiannis, S. Demirci, N. Navab AggNet: Deep Learning from Crowds for Mitosis Detection in Breast Cancer Histology Images IEEE Transactions on Medical Imaging (TMI), Special Issue on Deep Learning, vol. 35, no. 5, pp. 1313 - 1321, 2016. The first two authors contribute equally to this paper. (bib)
	A. Vahadane, T. Peng, A. Sethi, S. Albarqouni, L. Wang, M. Baust, K. Steiger, A. M. Schlitter, I. Esposito, N. Navab Structure-Preserving Color Normalization and Sparse Stain Separation for Histological Images IEEE Transactions on Medical Imaging (TMI), vol. 35, no. 8, pp. 1962 - 1971, 2016. (bib)