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Directional anisotropic diffusion applied to segmentation of vessels in 3D images [chapter]

Karl Krissian, Gregoire Malandain, Nicholas Ayache
1997 Lecture Notes in Computer Science  
In this report, we introduce a new implementation of the anisotropic diffusion which allows us to reduce the noise and better preserve small structures like vessels in 3D images.  ...  This process can be applied in medical image analysis to segment the different anatomical structures.  ...  # £ ¦ # " £ % $ ' & ) ( 1 Real image of vessels We applied our algorithm to a 9 6 @ subvolume taken from a 3D angiography of the brain (courtesy of Dr.  ... 
doi:10.1007/3-540-63167-4_68 fatcat:yuemqmuehrgy3hd26uskpfmhvy

Flux-based anisotropic diffusion applied to enhancement of 3-D angiogram

K. Krissian
2002 IEEE Transactions on Medical Imaging  
To this end, we have selected a 3D basis that depicts the directions of principal curvature and has an interesting interpretation in the context of the vessels.  ...  We present a new approach to anisotropic diffusion based on a multi-directional diffusion flux.  ...  Acknowledgments The author wishes to acknowledge Luc Soler from the IRCAD 2 for providing the image of the liver, and Luis Alvarez for welcoming him to the University of Las Palmas de Gran Canaria.  ... 
doi:10.1109/tmi.2002.806403 pmid:12575880 fatcat:e5spezbfrbatflhdigod3jx37u

Vessel enhancing diffusionA scale space representation of vessel structures

R MANNIESING, M VIERGEVER, W NIESSEN
2006 Medical Image Analysis  
Vessel enhancing diffusion (VED) is applied to patient and phantom data and compared to linear, regularized Perona-Malik, edge and coherence enhancing diffusion.  ...  It is shown that using VED as a preprocessing step improves level set based segmentation of the cerebral vasculature, in particular segmentation of the smaller vessels of the vasculature.  ...  comments on earlier drafts of this manuscript.  ... 
doi:10.1016/j.media.2006.06.003 pmid:16876462 fatcat:b2owylavizfjrljs227xuqknxi

3D segmentation of the whole heart vasculature using improved multi-threshold Otsu and white top-hat scale space hessian based vessel filter

Faiza Bukenya, Josef Ehling, Abdu Kiweewa Kalema, Imo Eyoh, John Robert, Li Bai
2016 2016 IEEE Symposium Series on Computational Intelligence (SSCI)  
Quantification of vessel density helps to know the stage of the disease during diagnosis and patient's response to treatment. However, this requires presence of all vessels in the image.  ...  tissue due to the presence of intensity inhomogeneity and noise in images.  ...  According to [50] [47] , visibility of the smalls vessels would be enhanced if Frangi hessian based vessel enhancement filter is combined with anisotropic diffusion, since anisotropic diffusion is  ... 
doi:10.1109/ssci.2016.7850137 dblp:conf/ssci/BukenyaEKERB16 fatcat:m5gz7ko5prhavpir6tqkcm2fj4

Comparison of Two Restoration Techniques in the Context of 3D Medical Imaging [chapter]

Miguel A. Rodriguez-Florido, Karl Krissian, Juan Ruiz-Alzola, Carl-Fredrik Westin
2001 Lecture Notes in Computer Science  
In this paper, we compare two restoration techniques applied to 3D angiographies and to femoral CT scans.  ...  Then, we discuss and compare the estimation of the local orientations in 3D images obtained either by the smoothed gradient and the principal curvature directions or by the eigenvectors of the structure  ...  Acknowledgements Thanks to L. Alvarez for supporting the second author as a post-doctoral grant, and to Miguel Aleman and Lauren O'Donnell for their help editing this paper.  ... 
doi:10.1007/3-540-45468-3_123 fatcat:g3fheeye5jaqngtfbefk32plky

Multiscale tensor anisotropic filtering of fluorescence microscopy for denoising microvasculature

V. B. S. Prasath, R. Pelapur, O. V. Glinskii, V. V. Glinsky, V. H. Huxley, K. Palaniappan
2015 2015 IEEE 12th International Symposium on Biomedical Imaging (ISBI)  
For this purpose, we propose a multiscale tensor with anisotropic diffusion model which progressively and adaptively updates the amount of smoothing while preserving vessel boundaries accurately.  ...  We further show that the proposed multiscale integration approach improves denoising accuracy of different tensor diffusion methods to obtain better microvasculature segmentation.  ...  diffusivity matrix consist of eigenvalues in (4) applied to each component of the tensor J(ru ) = (ru ⌦ ru ).  ... 
doi:10.1109/isbi.2015.7163930 pmid:26730456 pmcid:PMC4696606 fatcat:figs5az6cjbybcnase4vs3k56i

Automatic Extraction of Blood Vessels in the Retinal Vascular Tree Using Multiscale Medialness

Mariem Ben Abdallah, Jihene Malek, Ahmad Taher Azar, Philippe Montesinos, Hafedh Belmabrouk, Julio Esclarín Monreal, Karl Krissian
2015 International Journal of Biomedical Imaging  
The first step consists of applying anisotropic diffusion filtering in the initial vessel network in order to restore disconnected vessel lines and eliminate noisy lines.  ...  We propose an algorithm for vessel extraction in retinal images.  ...  Conflict of Interests The authors declare that there is no conflict of interests regarding to the publication of this paper.  ... 
doi:10.1155/2015/519024 pmid:25977682 pmcid:PMC4421077 fatcat:zhzout5asfhmjgavyjhrd3kimu

Anisotropic Curvature Motion for Structure Enhancing Smoothing of 3D MR Angiography Data

Oliver Nemitz, Martin Rumpf, Tolga Tasdizen, Ross Whitaker
2006 Journal of Mathematical Imaging and Vision  
We propose a novel concept of shape prior for the processing of tubular structures in 3D images. It is based on the notion of an anisotropic area energy and the corresponding geometric gradient flow.  ...  The gradient flow for this functional leads to an anisotropic curvature motion model, where the evolution is driven locally in direction of the considered template.  ...  [18] , which also applies to codimension 2 vessel structures based on a geometric diffusion in direction of the smallest principle curvature.  ... 
doi:10.1007/s10851-006-0645-2 fatcat:jvuaswdk7nauvl5i4brmnoaqay

Thin structure filtering framework with non-local means, Gaussian derivatives and spatially-variant mathematical morphology

T. A. Nguyen, A. Dufour, O. Tankyevych, A. Nakib, E. Petit, H. Talbot, N. Passat
2013 2013 IEEE International Conference on Image Processing  
Thin structure filtering is an important preprocessing task for the analysis of 2D and 3D bio-medical images in various contexts.  ...  Its relevance is demonstrated by validations on 2D and 3D images.  ...  principal vessel directions: I x1 , I x2 and I x3 (the latter in 3D only).  ... 
doi:10.1109/icip.2013.6738255 dblp:conf/icip/NguyenDTNPTP13 fatcat:k6kytm5vo5c4nbwmkuiacrhizy

Anisotropic plate diffusion filtering for detection of cell membranes in 3D microscopy images

K. Mosaliganti, F. Janoos, A. Gelas, R. Noche, N. Obholzer, R. Machiraju, S. Megason
2010 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
We propose an anisotropic diffusion method to denoise and aid the reconstruction of planar objects in three-dimensional images.  ...  We apply diffusion filtering to identify and enhance membranes.  ...  We develop an anisotropic diffusion filter for membrane images in clumped cellular regions.  ... 
doi:10.1109/isbi.2010.5490110 pmid:21766060 pmcid:PMC3136121 dblp:conf/isbi/MosaligantiJGNOMM10 fatcat:oykss2im4fdvpptpk6ntetzrle

Morphology-based cerebrovascular atlas

A. Dufour, C. Ronse, J. Baruthio, O. Tankyevych, H. Talbot, N. Passat
2013 2013 IEEE 10th International Symposium on Biomedical Imaging  
Cerebrovascular atlases can be used to improve medical tasks requiring the analysis of 3D angiographic data.  ...  The generation of such atlases remains however a complex and infrequently considered issue. The existing approaches rely on information exclusively related to the vessels.  ...  This analysis provides indirect clues of the relevance of methodological novelties related, e.g., to Hessian analysis, anisotropic diffusion and registration.  ... 
doi:10.1109/isbi.2013.6556698 dblp:conf/isbi/DufourRBTTP13 fatcat:qgtc2rza2ng4jpeazeem2sa2oi

Lowest-Variance Streamlines for Filtering of 3D Ultrasound [article]

Veronika Soltészová, Linn Emilie Sævil Helljesen, Wolfgang Wein, Odd Helge Gilja, Ivan Viola
2012 Eurographics Workshop on Visual Computing for Biomedicine  
This paper presents a novel type of structurepreserving filter that has been specifically designed to eliminate the presence of speckle and random noise in 3D ultrasound datasets.  ...  This filter is based on a local distribution of variance for a given voxel. The lowest variance direction is assumed to be aligned with the direction of the structure.  ...  The direction x min which corresponds to the line segment with the lowest variance will be copied to the output 3D vector field at the position of P.  ... 
doi:10.2312/vcbm/vcbm12/041-048 fatcat:nm5beeoijrex3dnxu3lzwmaglq

Segmentation of Neuronal Axons in Brainbow Images

Tae-Yun Kim, Mi-Sun Kang, Myoung-Hee Kim, Heung-Kook Choi
2012 Journal of Korea Multimedia Society  
Then, for preprocessing, we also applied two methods: anisotropic diffusion filtering and bilateral filtering.  ...  In neuroscientific research, image segmentation is one of the most important processes.  ...  Anisotropic Diffusion Filtering The first preprocessing method applied in this study was anisotropic diffusion filtering [22] [23] .  ... 
doi:10.9717/kmms.2012.15.12.1417 fatcat:nmdola2c2rditnzrtivw3zidoy

Segmentation of Intra-retinal Layers in 3D Optic Nerve Head Images [chapter]

Chuang Wang, Yaxing Wang, Djibril Kaba, Haogang Zhu, You Lv, Zidong Wang, Xiaohui Liu, Yongmin Li
2015 Lecture Notes in Computer Science  
The segmentation results show that our method can effectively delineate the surfaces of the retinal tissues in the noisy 3D optic nerve head images.  ...  In this paper, we propose an automated segmentation method to detect intra-retinal layers in SD-OCT images around optic nerve head acquired from a high resolution RTVue-100 SD-OCT (Optovue, Fremont, CA  ...  The authors would like to thank Quan Wang for providing the source of the MRF method.  ... 
doi:10.1007/978-3-319-21969-1_28 fatcat:uid5yip2wfhjzpikregvfvmcju

Automated segmentation and quantification of OCT angiography for tracking angiogenesis progression

Ang Li, Jiang You, Congwu Du, Yingtian Pan
2017 Biomedical Optics Express  
In this paper, we proposed an angiogenesis tracking algorithm which combines improved vessel segmentation and brain boundary detection methods to significantly enhance time-lapse OCTA images for quantification  ...  enabled coregistration of 3D OCTA data sets from different time points for accurate vessel density assessment and analysis of their changes in various cortical layers.  ...  Disclosures The authors declare that there are no conflicts of interest related to this article.  ... 
doi:10.1364/boe.8.005604 pmid:29296491 pmcid:PMC5745106 fatcat:y6qrolhtjjb3dhiroute45cv2q
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