medical image analysis€¦ · learning objectives • describe different image acquisition...
TRANSCRIPT
![Page 1: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/1.jpg)
Medical Image AnalysisCourse FMAN30,
Study period 2, 2016
Kalle ÅströmCentre for mathematical Sciences
Lund University
![Page 2: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/2.jpg)
• Mathematical imaging group– http://www2.maths.lth.se/matematiklth/vision/
• Cardiac MR Group– http://www.med.lu.se/klinvetlund/klinisk_fysiologi/forskning/cardi
ac_mr_group
![Page 3: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/3.jpg)
Learning objectives• Describe different image acquisition techniques used in medical
imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT.• Explain and use medical image analysis algorithms to perform
registration, segmentation and classification • Decide on appropriate algorithms for solving medical image analysis
problems• Implement automated medical analysis systems• Validate the results of automated medical analysis systems
![Page 4: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/4.jpg)
Topics• Introduction, validation, databases, dicom • Ethics, regulatory aspects • Image registration • Image segmentation • Machine learning • Invited talks
– For example: Helene Fransson – Medviso, Karl Sjöstrand – Exini Diagnostics, Olof Jarlman – Region Skåne, Kent Stråhlén –Cellavision
![Page 5: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/5.jpg)
Who are we• Einar Heiberg
– Associate professor, Numerical Analysis, Clinical Physiology, Medical Image Analysis
• Anders Heyden– Professor, Mathematics,
Image Analysis• Niels Christian Overgaard
– Associate professor, Mathematics, Image Analysis
• Kalle Åström– Professor, Mathematics,
Image Analysis
• Helen Fransson– Medviso
• Karl Sjöstrand– Exini
Diagnostics
• Olof Jarlman– Region
Skåne
• Kent Stråhlén– Cellavision
![Page 6: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/6.jpg)
Teaching form
• Lectures (16 lectures)• 4 assignments
– Assignments
– Dates, times and room for supervision on assignmentswill be posted on the homepage
• Oral exam• Grade based on assignments and oral exam?
![Page 7: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/7.jpg)
Course material• Website, homepage
• http://www.maths.lth.se/course/medim/2016/• Lecture notes
– On website: • Assignments• Schedule
![Page 8: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/8.jpg)
Examples
![Page 9: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/9.jpg)
Detection and Diagnosis of Kidney LesionsScandinavian Conference on Image Analysis, 2011
LDA QDA ANN
Area under ROC curve (AUC) 0.964 0.935 0.960
Sensitivity (%) 96.5 96.5 96.5
Specificity (%) 84.8 61.2 83.4
Positive Predictive value (%) 35.0 17.4 32.9
Negative Predictive value (%) 99.7 99.5 99.6
Mis-classification rate (%) 14.2 36.0 15.6
![Page 10: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/10.jpg)
● Generate a lot of features using standard image processing techniques.
● Let machine learning algorithm handle the potential over fitting.
● We use random forest which is fast to train and extremely fast to classify, 50μs.
● High accuracy and confidence on each classification.
● The confidence measure can be used in semi-supervised setup.
Homogeneous
Examples of the six different staining patterns.
Cytoplasmatic
Centromere
Nuceolar
Fine-speckled
Coarse-speckled
Hep-2 Staining Pattern ClassificationPetter Strandmark, Johannes Ulén and Fredrik Kahl.
Accuracy as a function of reject rate. We can remove the result we are most uncertain of.11.1% removed give perfect result.
To be presented at: International Conference on Pattern Recognition (ICPR) 2012, Tsukuba Japan.
![Page 11: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/11.jpg)
Diagnosis of PulmonaryEmbolism
European Journal of Nuclear Medicine, 2000
![Page 12: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/12.jpg)
Segmentation – shape variation methodsUnderstanding both appearance and shape
![Page 13: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/13.jpg)
SCINT - Heart
![Page 14: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/14.jpg)
Segmentation results
![Page 15: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/15.jpg)
Exini Diagnostics
![Page 16: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/16.jpg)
MR – knee injuries
![Page 17: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/17.jpg)
SPECT – brain (dementia)
![Page 18: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/18.jpg)
Gated SCINT - heart
CAFU
QGS
EDV ESV EDV ESV
185 ml46 ml 21 ml 71 ml
45 ml 21 ml 201 ml 122 ml
TRUE 57 ml 22 ml 186 ml 72 ml
![Page 19: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/19.jpg)
Automated Pharmacokinetic AnalysisScandinavian Conference on Image Analysis, 2011
![Page 20: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/20.jpg)
CAFU
QGS
EDV ESV EDV ESV
185 ml
46 ml 21 ml 71 ml
45 ml 21 ml 201 ml 122 ml
TRUE 57 ml 22 ml 186 ml 72 ml
![Page 21: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/21.jpg)
Longitudinal expansion ofleft ventricle
![Page 22: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/22.jpg)
![Page 23: Medical Image Analysis€¦ · Learning objectives • Describe different image acquisition techniques used in medical imaging, e.g. Röntgen, CT, MR, ultrasound, PET, Scint and SPECT](https://reader035.vdocument.in/reader035/viewer/2022071002/5fbfa0502ef95053bb06aba6/html5/thumbnails/23.jpg)
Masters thesis suggestion of the day
• Detection and grading of cancer in histopathological images
• Pathological samples• Staining• Scanning• High resolution• GB sized images• Large field of view