Medical Computer Vision
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- Jemimah Thompson
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1 Vienna Computer Vision Meetup sponsored by Medical Computer Vision Markus Holzer
2 Overview About Me Medical Images 3 Examples: - A Standard Approach with Example on X-Ray Images Fetal MR: Brain Development CT/MR: 3D Image Search
3 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography
4 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source:
5 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source:
6 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source:
7 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source: 20Multimedia/About% 20Neuroscience/Technologies/MRI_blackandwhite.ashx
8 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source: org/wikipedia/commons/9/9a/default_mode_network-wrnmmc. jpg
9 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source:
10 Medical Images Digital Pathology X-Ray CT - Computed Tomography MRI - Magnetic Resonance Imaging fmri - functional MRI OCT - Optical Coherence Tomography PET - Positron Emission Tomography Source:
11 Overview About Me Medical Images 3 Examples: - A Standard Approach with Example on X-Ray Images Fetal MR: Brain Development CT/MR: 3D Image Search
12 A Common Computer Vision approach: Input: Images Annotations Methods Model (e.g. shape of a bone) Classifier (based on extracted features) Medizinische Bildverarbeitung UE, Vienna University of Technology,
13 X-Ray Example: Bone Detection Input: X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology,
14 X-Ray Example: Bone Detection Input: Dataset: 50 images (30 for training, 20 for testing) X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology,
15 X-Ray Example: Bone Detection Input: Dataset: 64 annotations per image X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology,
16 X-Ray Example: Bone Detection Input: Shape Variations X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology,
17 X-Ray Example: Bone Detection Input: Shape Variations (first 3) X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output 1st dim. (highest variation) Medizinische Bildverarbeitung UE, Vienna University of Technology, nd dim. 3rd dim.
18 X-Ray Example: Bone Detection Feature Extraction: Examples Input: X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output gray values Medizinische Bildverarbeitung UE, Vienna University of Technology, x-coordinate gradient Haar-like
19 X-Ray Example: Bone Detection Input: Classifier: Random Forest - training X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology, Mask Features
20 X-Ray Example: Bone Detection Input: Classifier: Random Forest X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output gray values gradient Medizinische Bildverarbeitung UE, Vienna University of Technology, Haar-like #1 x-coordinate
21 X-Ray Example: Bone Detection Input: Classifier: Random Forest - predict X-Ray Images Annotations Methods Shape Model Feature Extraction Classifier Output Medizinische Bildverarbeitung UE, Vienna University of Technology,
22 X-Ray Example: Bone Detection Input: X-Ray Images Annotations Methods Classifier: Random Forest - predict -> = + Shape Model Feature Extraction Classifier Output Classifier Medizinische Bildverarbeitung UE, Vienna University of Technology, Model Result
23 X-Ray Example: Bone Detection Results Medizinische Bildverarbeitung UE, Vienna University of Technology,
24 X-Ray Example: Bone Quantification Quantification G. Langs, P. Peloschek, H. Bischof and F. Kainberger. Automatic Quantification of Joint Space Narrowing and Erosions in Rheumatoid Arthritis. IEEE TMI, 28(1): , Jan Example:
25 Overview About Me Medical Images 3 Examples: - A Standard Approach with Example on X-Ray Images Fetal MR: Brain Development CT/MR: 3D Image Search
26 Fetal-MR Example: Fetal Brain Development Input: Fetal-MR Volumes Methods Volume Creation Registration / Atlas Segmentation Extract Surface E. Schwartz. Fetal-MR Analysis.
27 Fetal-MR Example: Fetal Brain Development Input: Example: Fetal-MR Volumes Methods Volume Creation Registration / Atlas Segmentation Extract Surface E. Schwartz. Fetal-MR Analysis.
28 Fetal-MR Example: Fetal Brain Development Input: Example: Fetal-MR Volumes Methods Volume Creation Registration / Atlas Segmentation Extract Surface E. Schwartz. Fetal-MR Analysis.
29 Fetal-MR Example: Fetal Brain Development Input: Fetal-MR Volumes Methods Volume Creation Registration / Atlas Segmentation / Surface Ext. Visualization E. Schwartz. Fetal-MR Analysis.
30 Fetal-MR Example: Fetal Brain Development Input: Fetal-MR Volumes Methods Volume Creation Registration / Atlas Segmentation / Surface Ext. Visualization E. Schwartz. Fetal-MR Analysis.
31 Fetal-MR Example: Fetal Brain Development Input: Fetal-MR Volumes Methods Video Link Volume Creation Registration / Atlas Segmentation / Surface Ext. Visualization E. Schwartz. Fetal-MR Analysis.
32 Fetal-MR Example: Region Development Region Map of Adult Brain: How do they develop in the fetus? E. Schwartz. Fetal-MR Analysis.
33 Fetal-MR Example: Region Development Region Map of Adult Brain: H. Lombart, L. Grady, JR. Polimeni, F. Cheriet. FOCUSR: feature oriented correspondence using spectral regularization -- a method for precise surface matching. IEEE TPAMI, 35(9): , Sep 2013.
34 Fetal-MR Example: Fetal Brain Development Visualization: Video Link E. Schwartz. Fetal-MR Analysis.
35 Overview About Me Medical Images 3 Examples: - A Standard Approach with Example on X-Ray Images Fetal MR: Brain Development CT/MR: 3D Image Search
36 CT Example: 3D Image Search - Khresmoi Input: Lung CT Volumes Methods Registration/Localization Feature Extraction Retrieval
37 CT Example: 3D Image Search - Khresmoi Input: CT Volumes Methods Registration/Localization Feature Extraction Retrieval
38 CT Example: 3D Image Search - Khresmoi Input: Over-Segmentation: CT Volumes Methods Registration/Localization Feature Extraction Retrieval M. Holzer, R. Donner. Over-Segmentation of 3D Medical Image Volumes based on Monogenic Cues. Proceedings of the 19th CVWW, pp 35-42, 2014.
39 CT Example: 3D Image Search - Khresmoi
40 CT Example:
41 Summary About Me Medical Images 3 Examples: - A Standard Approach with Example on X-Ray Images Fetal MR: Brain Development CT/MR: 3D Image Search
42 Unlocking the potential of medical image data image analysis machine learning consulting
43 Vienna Computer Vision Meetup sponsored by Medical Computer Vision Markus Holzer
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