Reconstruction and Registration of Histology and Phase Contrast Images for Clinical Validation of Imaging ModalitiesBefore its introduction into the hospital, a new imaging modality has to be validated. In other words, appearing structures need to be correlated to the imaged tissues. Such a cross validation is only meaningful when performed against the gold standard which is histology. Currently, cross validation is performed by qualitative comparison of 3D datasets to 2D histology slices. Since the acquisition of a consistent 3D histology volume is a challenging task, its comparison to the corresponding dataset always remained qualitative.
The classic histology procedure can be divided in four steps: pre processing, cutting, post processing and imaging of the tissues. In the first step, the sample is chemically processed to preserve the tissues and is then embedded in a paraffin block. By using a microtome, it is cut in very thin slices, and put on a glass slide. During post processing the sample is stained to enhance the structures of interest. The imaging is performed with a camera mounted in a microscope, or with a dedicated scanner. Several difficulties inherent to this process can have a dramatic influence on the quality of the reconstructed histology volume. For instance, since the cutting process is done manually, problems like flipping, bending or ripping of the slides may happen. If the knife starts to wear off, some banding will appear over the slices. Moreover, a few slices could be missing. Finally since the staining color is time dependent, variation in the color of the slices can occur.
In this project, we propose to improve the histology procedure and to develop methods towards a consistent reconstruction of 3D histology volumes.
|H. Heibel, B. Glocker, M. Groher, M. Pfister, N. Navab
Interventional Tool Tracking using Discrete Optimization
IEEE Transactions on Medical Imaging (TMI) (bib)
|Y. Yagi, M. Groher, M. Feuerstein, M. Onozato, H. Heibel, N. Navab
Overcoming Challenges in Histology 3D Imaging
11th European Congress on Telepathology and 5th International Congress on Virtual Microscopy, Venice, Italy, June 2011. (bib)
|M. Feuerstein, H. Heibel, J. Gardiazabal, N. Navab, M. Groher
Reconstruction of 3-D Histology Images by Simultaneous Deformable Registration
Proceedings of Medical Image Computing and Computer-Assisted Intervention (MICCAI 2011), Toronto, Canada, September 2011.
The original publication is available online at www.springerlink.com (bib)
|B. Glocker, H. Heibel, N. Navab, P. Kohli, C. Rother
TriangleFlow: Optical Flow with Triangulation-based Higher-Order Likelihoods
11th European Conference on Computer Vision (ECCV), Crete, Greece, September 5-11 2010. (bib)
|L. Wang, M. Springer, H. Heibel, N. Navab
Floyd-Warshall All-Pair Shortest Path for Accurate Multi-Marker Calibration
The 9th IEEE and ACM International Symposium on Mixed and Augmented Reality, Seoul, Korea, Oct. 13 - 16, 2010. (bib)
|O. Pauly, H. Heibel, N. Navab
A Machine Learning Approach for Deformable Guide-Wire Tracking in Fluoroscopic Sequences.
Medical Image Computing and Computer-Assisted Intervention (MICCAI 2010), Beijing, China, September 2010 (bib)
|H. Heibel, B. Glocker, N. Paragios, N. Navab
Needle Tracking Through Higher-Order MRF Optimization
IEEE International Symposium on Biomedical Imaging (ISBI), Rotterdam, The Netherlands, April 14 - 17 2010. (bib)
|H. Heibel, B. Glocker, M. Groher, N. Paragios, N. Komodakis, N. Navab
Discrete Tracking of Parametrized Curves
IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR), Miami, Florida (USA), June 2009. (bib)
|F. Bender, M. Groher, A. Khamene, W. Wein, H. Heibel, N. Navab
3D Dynamic Roadmapping for Abdominal Catheterizations
Medical Image Computing and Computer-Assisted Intervention, MICCAI, 2008, New York, USA, September 6-10 2008 (bib)
|J. Traub, H. Heibel, P. Dressel, S.M. Heining, R. Graumann, N. Navab
A Multi-View Opto-Xray Imaging System: Development and First Application in Trauma Surgery
Proceedings of Medical Image Computing and Computer-Assisted Intervention (MICCAI 2007), Brisbane, Australia, October/November 2007. (bib)
|J. Platonov, H. Heibel, P. Meier, B. Grollmann
A mobile markerless AR system for maintenance and repair.
The Fifth IEEE and ACM International Symposium on Mixed and Augmented Reality, Santa Barbara, CA, USA, Oct. 22 - 25, 2006. (bib)
|Groups:||Medical Imaging, Computer Vision|
|Expertise:||Computer Vision, Industrial Augmented Reality|
|Telephone:||+49 89 289 10933|
|Alumniactivity:||CTO of microDimensions|
|Defensedate:||2 May 2011|
|Thesistitle:||Medical Tool Tracking in Fluoroscopic Interventions - New Insights in Detection and Tracking of Tubular Tools|