Dr. rer. nat. Athanasios Karamalis Email : akaramal@gmail.com

Profile

I am a development engineer at Rohde & Schwarz GmbH & Co KG. My activities involve research in image processing, computer vision and machine learning; together with software development.

Dissertation

Ultrasound Confidence Maps and Applications in Medical Image Processing.

Ultrasound Confidence Maps Code

Ultrasound confidence estimation using random walks.

Research Interest

• Medical Ultrasound
  • Modeling
  • Simulation
  • Segmentation
  • Registration
• Image Processing
• Scientific Visualization
• GPU-accelerated Algorithms and Parallel Computing

Publications

2015
	W. Wein, A. Karamalis, A. Baumgartner, N. Navab Automatic bone detection and soft tissue aware ultrasound--CT registration for computer-aided orthopedic surgery International journal of computer assisted radiology and surgery, June 2015, Volume 10, Issue 6 (bib)
	C. Hennersperger, M. Baust, P. Waelkens, A. Karamalis, A. Ahmadi, N. Navab Multi-Scale Tubular Structure Detection in Ultrasound Imaging Medical Imaging, IEEE Transactions on (34:1), Jan 2015 (bib)
2014
	C. Hennersperger, A. Karamalis, N. Navab Vascular 3D+T Freehand Ultrasound using Correlation of Doppler and Pulse-Oximetry Data Information Processing in Computer-Assisted Interventions, Lecture Notes in Computer Science Volume 8498, 2014, pp 68-77 (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)
	S. Kraft, A. Karamalis, D. Sheet, E. Drecoll, E. Rummeny, N. Navab, P. B. Noël, A. Katouzian Introducing nuclei scatterer patterns into histology-based intravascular ultrasound simulation framework To appear in: SPIE Medical Imaging 2013 (bib)
	D. Sheet, A. Karamalis, S. Kraft, P. B. Noël, T. Vag, A. Sadhu, A. Katouzian, N. Navab, J. Chatterjee, A. K. Ray Random Forest learning of ultrasonic statistical physics and object spaces for lesion detection in 2D sonomammography To appear in: SPIE Medical Imaging 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
	M. Müller, A. Karamalis, N. Navab Visualization of Organ Motion during Breathing from 4D Datasets International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Workshop on Augmented Environments for Computer-Assisted Interventions (AE-CAI), Nice France, 2012 (bib)
	J. Beitzel, A. Ahmadi, A. Karamalis, W. Wein, N. Navab Ultrasound Bone Detection Using Patient-Specific CT Prior International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), San Diego, USA, September 1 2012. (bib)
	A. Katouzian, A. Karamalis, A. Konig, S. Carlier, N. Navab Ambiguity in detection of necrosis in IVUS plaque characterization algorithms European Society of Cardiology, Munich, Germany, 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. Karamalis, W. Wein, T. Klein, N. Navab Ultrasound Confidence Maps using Random Walks Medical Image Analysis, 16, 6, 1101 - 1112, 2012, DOI: http://dx.doi.org/10.1016/j.media.2012.07.005 (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. Karamalis, A. Katouzian, S. Carlier, N. Navab Confidence Estimation in IVUS Radio-Frequency Data with Random Walks In Proc. 9th IEEE International Symposium on Biomedical Imaging (ISBI), Barcelona, Spain, 2012 (bib)
	T. Klein, M. Hansson, A. Karamalis, N. Navab Registration of RF Ultrasound Data using Hybrid Local Binary Patterns IEEE International Symposium on Biomedical Imaging, Barcelona, Spain (bib)
	A. Katouzian, A. Karamalis, A. Laine, N. Navab A Systematic Approach Toward Reliable Atherosclerotic Plaque Characterization in IVUS Images Bildverarbeitung für die Medizin, Berlin, 2012, Germany (bib)
2011
	A. Ahmadi, M. Baust, A. Karamalis, A. Plate, K. Bötzel, T. Klein, N. Navab Midbrain Segmentation in Transcranial 3D Ultrasound for Parkinson Diagnosis In Proc. International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Toronto (CA), September 18-22, 2011 (bib)
2010
	A. Karamalis, W. Wein, N. Navab Fast Ultrasound Image Simulation using the Westervelt Equation In Proc. International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Beijing, China, September 20-24, 2010 (bib)
2009
	O. Kutter, A. Karamalis, W. Wein, N. Navab A GPU-Based Framework for Simulation of Medical Ultrasound SPIE Medical Imaging, Orlando, Florida, USA, February 2009 (bib)
	A. Karamalis, W. Wein, O. Kutter, N. Navab Fast Hybrid Freehand Ultrasound Volume Reconstruction In Proc. SPIE Medical Imaging, Orlando, Florida, USA, February 2009 (bib)

Professional Activities

• Reviewer for
  • IEEE Transactions on Medical Imaging
  • International Conference on Medical Image Computing and Computer Assisted Intervention
  • International Symposium on Biomedical Imaging
  • Transactions on Information Technology in BioMedicine
• Member of European PASSPORT Project

Finished Student Project

• Automatic Bone Detection in Ultrasound for CT-US Registration in Computer-Assisted Orthopedic Surgery by Julian Beitzel, co-supervised with Ahmad Ahmadi
• Rapid-Application-Development Platform in Matlab for Segmentation and Registration in Computer-Assisted Orthopedic Surgery by Yasmin Blunck, co-supervised with Ahmad Ahmadi
• Visualization of 4D Breathing Motion from Medical Dataset by Markus Müller
• RF2B : RF to B-mode Ultrasound by André Dau, co-supervised with Christian Wachinger

Teaching

• Lecturer (SS12) Computer Aided Medical Procedures 2
• Tutor (WS12) Grundlagen Betriebssystem und Systemsoftware
• Lab Course (SS11) Kinect Programming for Computer Vision
• Lecturer (SS11) Computer Aided Medical Procedures 2
• Organizer (WS10) Computer Aided Medical Procedures 1
• Tutor (WS09) Praktikum Grundlagen der Programmierung
• Lab Course (WS09) Projekt Systementwicklung: Bildverarbeitung und Computer-Graphik mit C++
• Lecturer (SS09) Computer Aided Medical Procedures 2

MSc Thesis

• GPU ultrasound simulation and volume reconstruction. In collaboration with Siemens Corporate Research, Princeton, NJ, USA
• Thesis homepage, Thesis PDF, Thesis Presentation (without videos)