Postdoctoral Research Fellow Dr. Abouzar Eslami Chair for Computer Aided Medical Procedures & Augmented Reality Fakultät für Informatik Technische Universität München Boltzmannstr. 3 85748 Garching b. München room: MI 03.13.053 Email: phone: +49 89 289-17081 fax: +49 89 289-17059 Groups: Registration/Visualization, Segmentation, Reconstruction, Medical Imaging, Machine Learning for Medical Applications

Research Interests

• Cardiac imaging and image analysis.
• Medical image registration and segmentation.
• Computer aided diagnosis.
• Computer assisted cardiac surgery.

Student projects

• Open Bayesian Vessel Tracking (Master Thesis)
• Open 3D cell tracking in two photon confocal microscopy (in-vivo) (Master Thesis)
• Open Tracking in Surgical Microscopy (Master Thesis)
• Running Segmentation of Fractured Bones (Master Thesis)
• Running Robot-Assisted Vitreo-retinal Surgery (Master Thesis)
• Running Calculation of signal intensity-time curves from MR images of the beating heart (Master Thesis)
• Finished Coupled Curves Segmentation (DA/BA/MA or IDP/SEP)
• Finished Shape guided segmentation of cardiac boundarieson (DA/BA/MA or IDP/SEP)

Active research projects

Shape Guided Segmentation of Cardiac Boundaries Prior shape information has been shown to be invaluable for segmenting cardiac boundaries. We develop new methods of exploiting such prior information to guide the segmentation by using techniques of machine learning or formulating the segmentation problem to fit our requirements in segmentation of 4D cardiac data.

Teaching

• ws 2013/14: Seminar Microscopy Image Analysis
• WS 2013/14: Lecture: Computer Aided Medical Procedure (CAMP)
• SS 2013: Lecture:Computer Aided Medical Procedure 2
• WS 2012/13: Lecture:Computer Aided Medical Procedure (CAMP)
• SS 2012: Lecture:Computer Aided Medical Procedure 2
• WS 2011/12: Lecture: Computer Aided Medical Procedure (CAMP)
• WS 2011/12: Master seminar:Advances in Spatio-Temporal Medical Image Processing: Theory and Applications

Reviewing & Conference Activity

• Journal of IEEE Transactions on Medical Imaging.
• Journal of Elsevier Medical Image Analysis.
• Journal of Elsevier Computers in Biology and Medicine.
• Journal of Elsevier Pattern Recognition Letters
• Conferences & Workshops: MICCAI, ISBI

Publications

2020
	J. Weiss, M. Sommersperger, M. A. Nasseri, A. Eslami, U. Eck, N. Navab Processing-Aware Real-Time Rendering for Optimized Tissue Visualization in Intraoperative 4D OCT Medical Image Computing and Computer Assisted Interventions (MICCAI) Lima, Peru, October 2020 (bib)
	M. Grimm, H. Roodaki, A. Eslami, N. Navab Automatic intraoperative Optical Coherence Tomography Positioning International Journal of Computer Assisted Radiology and Surgery / 11th International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), Munich, Germany, June 2020. (bib)
2019
	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)
	J. Weiss, U. Eck, M. A. Nasseri, M. Maier, A. Eslami, N. Navab Layer-Aware iOCT Volume Rendering for Retinal Surgery Eurographics Workshop on Visual Computing for Biology and Medicine, Brno, Czech Republic, September 2019 (bib)
	M. Zhou, X. Wang, J. Weiss, A. Eslami, K. Huang, M. Maier, C. P. Lohmann, N. Navab, A. Knoll, M. A. Nasseri Needle Localization for Robotic Subretinal Injection based on Deep Learning IEEE International Conference on Robotics and Automation(ICRA), 2019 (bib)
2018
	M. Zhou, M. Hamad, J. Weiss, A. Eslami, K. Huang, M. Maier, C. P. Lohmann, N. Navab, A. Knoll, M. A. Nasseri Towards Robotic Eye Surgery: Marker-free, Online Hand-eye Calibration using Optical Coherence Tomography Images IEEE Robotics and Automation Letters (also presented at IROS 2018) (bib)
	J. Weiss, N. Rieke, M. A. Nasseri, M. Maier, A. Eslami, N. Navab Fast 5DOF Needle Tracking in iOCT International Journal of Computer Assisted Radiology and Surgery / 9th International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), Berlin, Germany, June 2018. (bib)
	J. Weiss, N. Rieke, M. A. Nasseri, M. Maier, C. P. Lohmann, N. Navab, A. Eslami Injection Assistance via Surgical Needle Guidance using Microscope-Integrated OCT (MI-OCT) Proc. of International Society of Imaging in the Eye Conference, Association for Research in Vision and Ophthalmology (ARVO), Honolulu, USA, April 2018 (bib)
2017
	I. Laina, N. Rieke, C. Rupprecht, J. Page Vizcaino, A. Eslami, F. Tombari, N. Navab Concurrent Segmentation and Localization for Tracking of Surgical Instruments Accepted to Proceedings of the 20th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Quebec, Canada, September 2017. A pre-print version is available online at arXiv. The first two authors contribute equally to this paper. (bib)
	J. Page Vizcaino, N. Rieke, D. J. Tan , F. Tombari, A. Eslami, N. Navab Automatic Initialization and Failure Detection for Surgical Tool Tracking in Retinal Microsurgery Workshops Bildverarbeitung fuer die Medizin (BVM), Heidelberg, March 12-14, 2017. (bib)
2016
	M. Alsheakhali, A. Eslami, A. Roodaki, N. Navab CRF-Based Model for Instrument Detection and Pose Estimation in Retinal Microsurgery Computational and Mathematical Methods in Medicine, Special issue on Machine Learning Applications in Medical Image Analysis, 2016 (bib)
	H. Roodaki, C. Amat di San Filippo, D. Zapp, A. Eslami, N. Navab A Surgical Guidance System for Big-Bubble Deep Anterior Lamellar Keratoplasty Proceedings of the 19th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Athens, Greece, October 2016 (bib)
	N. Rieke, D. J. Tan , F. Tombari, J. Page Vizcaino, C. Amat di San Filippo, A. Eslami, N. Navab Real-Time Online Adaption for Robust Instrument Tracking and Pose Estimation Proceedings of the 19th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Athens, Greece, October 2016 (bib)
	N. Rieke, D. J. Tan , C. Amat di San Filippo, F. Tombari, M. Alsheakhali, V. Belagiannis, A. Eslami, N. Navab Real-time Localization of Articulated Surgical Instruments in Retinal Microsurgery Medical Image Analysis, vol. 34, 82-100, 2016. The original publication is available online at medicalimageanalysisjournal.com. A free version is available until November 17,2016 (bib)
	N. Rieke, A. Eslami, N. Navab Automatic iOCT Positioning During Membrane Peeling via Real-time High Resolution Surgical Forceps Tracking Proc. of International Society of Imaging in the Eye Conference, Association for Research in Vision and Ophthalmology (ARVO), Seattle, USA, April 2016 (bib)
	M. Alsheakhali, A. Eslami, N. Navab Detection of Articulated Instruments in Retinal Microsurgery Proceedings of International Symposium on Biomedical Imaging (ISBI), April 2016, Prague, Czech Republic (bib)
2015
	N. Rieke, D. J. Tan , M. Alsheakhali, F. Tombari, C. Amat di San Filippo, V. Belagiannis, A. Eslami, N. Navab Surgical Tool Tracking and Pose Estimation in Retinal Microsurgery Proceedings of the 18th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Munich, Germany, October 2015 (bib)
	M. Alsheakhali, A. Eslami, N. Navab Microscopic Surgical Tool Type Detection Proceedings of MICCAI Workshop on Interventional Microscopy (IM), October. 2015, Munich, Germany (bib)
	H. Roodaki, K. Filippatos, A. Eslami, N. Navab Introducing Augmented Reality to Optical Coherence Tomography in Ophthalmic Microsurgery International Symposium on Mixed and Augmented Reality (ISMAR), 2015 (bib)
	M. Yigitsoy, V. Belagiannis, A. Djurka, A. Katouzian, S. Ilic, F. Pernus, A. Eslami, N. Navab Random Ferns for Multiple Target Tracking in Microscopic Retina Image Sequences International Symposium on Biomedical Imaging: From Nano to Macro, New York, USA, April 2015 (bib)
	M. Alsheakhali, M. Yigitsoy, A. Eslami, N. Navab Real Time Medical Instrument Detection and Tracking in Microsurgery Bildverarbeitung für die Medizin, March. 2015, Lübeck, Germany (bib)
	M. Alsheakhali, M. Yigitsoy, A. Eslami, N. Navab Surgical Tool Detection and Tracking in Retinal Microsurgery SPIE, Feb. 2015, Orlando, Florida, USA. (bib)
2014
	T. Peng, M. Yigitsoy, A. Eslami, C. Bayer, N. Navab Deformable registration of multi-modal microscopic images using a pyramidal interactive registration- learning methodology 6th Workshop on Biomedical Image Registration, London, UK, July, 2014 (bib)
2013
	D. Sheet, A. Karamalis, A. Eslami, P. B. Noël, J. Chatterjee, A. K. Ray, A. Laine, S. Carlier, N. Navab, A. Katouzian Joint Learning of Ultrasonic Backscattering Statistical Physics and Signal Confidence Primal for Characterizing Atherosclerotic Plaques using Intravascular Ultrasound Medial Image Analysis, 2013, (bib)
	D. Sheet, A. Karamalis, A. Eslami, P. B. Noël, , , J. Chatterjee, A. K. Ray, A. Laine, S. Carlier, N. Navab, A. Katouzian Hunting for necrosis in the shadows of intravascular ultrasound Special Issue, Computerized Medical Imaging and Graphics, 2013, (bib)
	A. Eslami, A. Karamalis, A. Katouzian, N. Navab Segmentation By Retrieval With Guided Random Walks: Application To Left Ventricle Segmentation in MRI Medical Image Analysis, vol. 17, no. 2, 2013, www.sciencedirect.com.ezproxy.cul.columbia.edu/science/article/pii/S136184151200151X (bib)
2012
	O. Pauly, A. Katouzian, A. Eslami, P. Fallavollita, N. Navab Supervised Classification for Customized Intraoperative Augmented Reality Visualization The 11th IEEE and ACM International Symposium on Mixed and Augmented Reality (ISMAR), Atlanta, USA, Nov. 5 - 8, 2012. (bib)
	A. Katouzian, A. Karamalis, D. Sheet, E. Konofagou, B. Baseri, S. Carlier, A. Eslami, A. Konig, N. Navab, A. Laine Iterative Self-Organizing Atherosclerotic Tissue Labeling in Intravascular Ultrasound Images and Comparison with Virtual Histology IEEE Transactions on Biomedical Engineering (bib)
	A. Katouzian, A. Karamalis, , A. Eslami, N. Navab IVUS-Histology Image Registration 5th Workshop on Biomedical Image Registration, Nashville, USA, July, 2012 (bib)
	A. Eslami, A. Teimori, M. Yigitsoy, N. Navab A new framework for morphological and morphometric study of fish species based on groupwise registration of otolith images IEEE International Symposium on Biomedical Imaging (ISBI), Barcelona, spain, May 2012 (bib)
2011
	A. Eslami, M. Yigitsoy, N. Navab Manifold learning for shape guided segmentation of Cardiac boundaries: Application to 3D+t Cardiac MR 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC'11), Boston, MA, August 30 - September 3, 2011. (bib)

Other Publications

• A Multiscale Phase Field Method for Joint Segmentation-Rigid Registration - Application to Motion Estimation of Human Knee Joint. A. Eslami, F. Esfandiarpour, A. Shakourirad, F. Farahmand. Journal of Biomedical Engineering-Applications Basis Communications, Accepted 2011
• Joint Denoising, Edge Detection and Motion Estimation of Cardiac MR Image Sequence by Phase Field Method. A. Eslami, M. Jahed, T. Preusser. Journal of Computers in Biology and Medicine, Vol. 40, Issue 1, Jan. 2010, pp. 22-28
• Fuzzy Motion Interpolation for Mesh Based Motion Estimation. A. Eslami, N. Sadati. IEEE Symposium on Computational Intelligence in Image and Signal Processing (CIISP 2007).
• A New Method For Colorizing Of Multichannel MR Images Based On Real Color Of Human Brain M. H. Kadbi , E. Fatemizadeh, A. Eslami. European signal processing Conference (EUSIPCO 2007).
• Radial Multiscale Cyst Segmentation in Ultrasound Images of Kidney. A. Eslami, S. Kasaei, M. Jahed. IEEE Symposium on Signal Processing and Information Technology (ISSPIT 2004).

Patents

• Patent No. IR38703972: GeomStudioSurface^? a CPU-GPU software implemented for geometric deformation investigation of 3D surfaces