ProjectZebrafish

Chair for Computer Aided Medical Procedures & Augmented Reality
Lehrstuhl für Informatikanwendungen in der Medizin & Augmented Reality

ProjectZebrafish

Automatic thrombus segmentation in in vivo micoscopic video sequences under low contrast and highly dynamic conditions

Automatic thrombus segmentation in in vivo micoscopic video sequences under low contrast and highly dynamic conditions

In academic collaboration with:
Jovana Serbanovic-Canic, The Wellcome Trust Sanger Institute and the University of Cambridge; Dr. Ana Cvejic, The Wellcome Trust Sanger Institute, the University of Cambride; Dr. Willem Ouwehand, The Wellcome Trust Sanger Institute, the University of Cambride, and the National Health Service Blood and Transplant; Dr. Derek Stemple, The Wellcome Trust Sanger Institute; The Wellcome Trust Sanger Institute, Hixton, United Kingdom Departement of hematology, University of Cambridge, Cambridge, United Kingdom National Health Service Blood and Transplant, Cambridge, United Kingdom

Contact Person(s): Nicolas Brieu

Keywords: Segmentation, Medical Imaging

Abstract

The Bloodomics EU project aims are to identify the genetic risks factors of coronary heart diseases.
One of the most common methods is to study the thrombus formation in the dorsal aorta of mutant Zebrafish larvae. The developing thrombus is imaged in vivo through a microscope/camera setup. The derived time to attachment, growth speed, and time to occlusion permits the characterization of the thrombus formation.
However, this step presently remains manual. Our objective is to provide the geneticists in the Wellcome Trust Sanger Institute with an image processing tool to automatically detect and segment the growing thrombus. This will significantly speed up and improve the precision of this current analysis.

Publications

2012
N. Brieu, N. Navab, J. Serbanovic-Canic, W. Ouwehand , D. Stemple, A. Cvejic, M. Groher
Image-based Characterization of Thrombus Formation in Time-lapse DIC Microscopy
Medical Image Analysis 2012 (bib)
2011
N. Brieu, M. Groher, J. Serbanovic-Canic, A. Cvejic, W. Ouwehand , N. Navab
Joint Thrombus and Vessel Segmentation Using Dynamic Texture Likelihoods and Shape Prior
Medical Image Computing and Computer-Assisted Intervention (MICCAI 2011), Toronto, Canada, September 2011 (bib)
2010
N. Brieu, J. Serbanovic-Canic, A. Cvejic, D. Stemple, W. Ouwehand , N. Navab, M. Groher
Thrombus Segmentation by Texture Dynamics from Microscopic Image Sequences
SPIE Medical Imaging, 13-18 February 2010, San Diego, California, USA (bib)
N. Brieu, B. Glocker, N. Navab, M. Groher
MAP-MRF Optimal Partitioning for Dynamic Texture Segmentation of Thrombus in Time-Series Microscopic Images
MICCAI 2010 Workshop on Spatio Temporal Image Analysis for Longitudinal and Time-Series Image Data (STIA'10), 24 September 2010, Beijing, China (bib)
2009
N. Brieu, J. Serbanovic-Canic, A. Cvejic, D. Stemple, W. Ouwehand , N. Navab, M. Groher
A dynamic texture approach to semi-automatic thrombosis segmentation in in-vivo microscopic video-sequences
Workshop on Microscopic Image Analysis and Application in Biology, (MIAAB 2009), Bethesda, MD (US), 3-4 September 2009 (bib)

Team

Contact Person(s)

Nicolas Brieu
M.Sc. Nicolas Brieu

Working Group

Martin Groher
Dr. Martin Groher
Nassir Navab
Prof. Dr. Nassir Navab
Nicolas Brieu
M.Sc. Nicolas Brieu
Stefanie Demirci
Dr. Stefanie Demirci

Location



Technische Universität München
Institut für Informatik / I16
Boltzmannstr. 3
85748 Garching bei München

Tel.: +49 89 289-17058
Fax: +49 89 289-17059
Visit our lab at Garching.



internal project page

Please contact Nicolas Brieu for available student projects? within this research project.

Edit | Attach | Refresh | Diffs | More | Revision r1.8 - 02 Nov 2010 - 14:38 - NeginZarnegar

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