Biomedical Images.ppt
- 2. BIOENGINEERING Group members Alfredo Ruggeri Associate professor Enrico Grisan Post doc Alfredo Giani (2003-) Post doc Massimo De Luca (2004-) PhD student Fabio Scarpa (2006-) PhD student Lorenzo Marafatto (2005-) Fellowship Marco Foracchia (-2003) PhD student Biomedical images processing and analysis
- 3. BIOENGINEERING Collaborations J. Jaroszewski - Cornea Bank Berlin, Clinic of Ophthalmology, University School of Medicine, Berlin, Germany A. Neubauer - Dept. of Ophthalmology, Ludwig Maximilians University, Munich, Germany P. Gain - Ophthalmology Department, Bellevue Hospital, Saint-Etienne, France S. Klyce – Eye Center, Louisiana State University, New Orleans (LO), USA S. Piermarocchi – Dept. of Ophthalmology, University of Padova D. Ponzin - Veneto Eye Bank Foundation, Venice, Italy A. Pocobelli - Eye Bank, S. Giovanni-Addolorata Hospital, Rome, Italy A. Bezerianos - Dept. of Medical Physics, University of Patras, Greece G. Barbaro - Nidek Technologies, Padova, Italy P. Favaro - Siemens Corporate Research, Princeton (NJ), USA Biomedical images processing and analysis
- 4. BIOENGINEERING Grants University of Padova: € 60.000 (shared) University of Padova: € 15.000 (shared) Ministry of University: € 20.000 CARIPARO Bank Foundation: € 40.000 Nidek Technologies: € 25.000 (+ 4 PhD fellowships) TESI Imaging: under negotiation Biomedical images processing and analysis
- 5. BIOENGINEERING Publications Biomedical images processing and analysis 0 1 2 3 4 5 6 7 8 2001 2002 2003 2004 2005 Intl Journals Intl Conf Papers Intl Conf Abstracts In
- 6. BIOENGINEERING Biomedical images processing and analysis 1.Cell contour recognition for in-vivo microscopy of corneal endothelium
- 7. BIOENGINEERING 1. Contour extraction Cell contour recognition Artificial Neural Network with weight-filters arrays Mathematical morphology 2. Contour completion Connection of floating facing boundaries
- 8. BIOENGINEERING • The ENDO software is a module of the system for ophthalmology. Cell contour recognition
- 9. BIOENGINEERING Cell contour recognition Human visual processing is very powerful and complex … Kanisza triangles Kanisza square
- 10. BIOENGINEERING Cell contours appear nice and clear on a broad view…. Human visual processing is very powerful and complex … Cell contour recognition … but local gray-scale values do not give all the information necessary to identify all cell contours: false contours missed contours … but local gray-scale values do not give all the information necessary to identify all cell contours: … but local gray-scale values do not give all the information necessary to identify all cell contours:
- 11. BIOENGINEERING A glimpse of tomorrow …
- 12. BIOENGINEERING Biomedical images processing and analysis 2.Fourier analysis for the estimation of endothelium cell density on eye bank images Fully automatic technique in eye banks without cell contour detection. A repetitive pattern of cell borders is clearly visible. Spatial frequency of this pattern is proportional to cell density. Frequency information is available through Fourier analysis.
- 13. BIOENGINEERING A circular band indicates that the endothelium image contains a repetitive pattern at a specific frequency. Spatial frequency is the radius of the band Gray-scale image of 2D-DFT log-magnitude. Frequency-based density estimation Radius of circular band can be used to estimate cell density. (Foracchia et al., Med Biol Eng Comput, 2004)
- 14. BIOENGINEERING 1500 2000 2500 3000 3500 1500 2000 2500 3000 3500 Manual density (cell/mm 2 ) Automatic density (cell/mm2) Frequency-based density estimation (Ruggeri et al., Br J Ophthalmol, 2005)
- 15. BIOENGINEERING • The EyeBank software is a module of the system for ophthalmology. Nidek Technologies NAVIS-EyeBank system
- 16. BIOENGINEERING 3. Tracking techniques for vessel-like structure Biomedical images processing and analysis Applications to: • vessels in retina • nerves in cornea Clinical parameters: • length • tortuosity • bifurcations • caliber course • optic disc detection
- 17. BIOENGINEERING Tracking techniques in retina (Foracchia et al., Med Image Anal, 2005)
- 18. BIOENGINEERING Tracking techniques in retina (Foracchia et al., IEEE TMI, 2004)
- 19. BIOENGINEERING Tracking techniques in cornea
- 20. BIOENGINEERING Biomedical images processing and analysis 4.Methodologies in eye fundus analysis for the diagnosis of retinopathy Hypertensive and diabetic retinopathies are characterized by presence of fundus lesions. Automatic and objective tools for image analysis: • patient screening • disease assessment & monitoring in time • (new) drugs efficacy
- 21. BIOENGINEERING Steps: • Detection • Classification • Measurement • Clinical assessment Eye fundus analysis (Grisan et al., EMBEC’05 Conf., 2005)
- 22. BIOENGINEERING Biomedical images processing and analysis 5. Design and realization of an adaptive optics fundus camera Flash path Wavefront sensor Retinal Imaging Eye Image Processing
- 23. BIOENGINEERING Adaptive optics fundus camera Acquired image Coma Defocus Astigmatism Corrected image Image Analysis Mirror update Simulation system with creation of aberrated image and correction system (Grisan et al., IEEE EMBS Conf., 2005)
- 24. BIOENGINEERING Biomedical images processing and analysis 6. Automatic cariotyping
- 25. BIOENGINEERING Automatic cariotyping 1. Segmentation of single chromosomes 2. Classification and pairing 1. - image enhancement - cluster segmentation - touching and overlapping elimination by cuts 2. - feature extraction (banding) - classification