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Deformable models in medical image analysis: a survey

Tim McInerney, Demetri Terzopoulos
1996 Medical Image Analysis  
They have proven to be effective in segmenting, matching, and tracking anatomic structures by exploiting (bottom-up) constraints derived from the image data together with (top-down) a priori knowledge  ...  This article reviews the rapidly expanding body of work on the development and application of deformable models to problems of fundamental importance in medical image analysis, including segmentation,  ...  TM is grateful for the financial support of an NSERC postgraduate scholarship. DT is a fellow of the Canadian Institute for Advanced Research.  ... 
doi:10.1016/s1361-8415(96)80007-7 pmid:9873923 fatcat:pb3ros6vcbdhte4ifj7xnbqnfe

Embryology of the VNO and associated structures in the grass snake Natrix natrix (Squamata: Natricinae): a 3D perspective

Paweł Kaczmarek, Mateusz Hermyt, Weronika Rupik
2017 Frontiers in Zoology  
The purpose of this study was, first, to examine the embryonic development of the vomeronasal organ and the associated structures in the grass snake (Natrix natrix), using three-dimensional reconstructions  ...  Our descriptions offer material useful for future comparative studies of Squamata, both at their anatomical and histological levels.  ...  Simmons, BA, English Language Centre (ELC) (retired), University of Silesia, Katowice, Poland for improving the English style.  ... 
doi:10.1186/s12983-017-0188-y pmid:28101121 pmcid:PMC5237294 fatcat:dclbshkdhfazflma5usfurxjnq

Signal and Image Processing

D.R. Adam
2001 IMIA Yearbook of Medical Informatics  
The method depends of course on a knowledge base of the bronchial branch name, which holds this information as a set of rules for its anatomical labeling.  ...  The main goal of this effort was to produce a user friendly system, which is very simple to operate, yet allows powerful operations of data integration and management, and meaningful display of 3D organs  ... 
doi:10.1055/s-0038-1638098 fatcat:hiu7biplqjgehdiluh33i7cfeu

Fast volumetric mapping of human brain slices

Luca Pesce, Annunziatina Laurino, Vladislav Gavryusev, Giacomo Mazzamuto, Giuseppe Sancataldo, Marina Scardigli, Matteo Roffilli, Ludovico Silvestri, Irene Costantini, Francesco Saverio Pavone, Qingming Luo, Jun Ding (+1 others)
2020 Neural Imaging and Sensing 2020  
We perform volumetric imaging of large sequentially stained human brain slices, labelled for two different neuronal markers NeuN and GAD67, discriminating the inhibitory population and reconstructing the  ...  We still lack a detailed map of the anatomical disposition of neurons in the human brain.  ...  Next, to evaluate the cytoarchitecture of our sample, a fast down sampled 3D reconstruction is performed using Zsticher.  ... 
doi:10.1117/12.2544133 fatcat:2u3r4aggbvbahhs5ornl6eouuu

Exquisitely Preserved Fossil Snakes of Messel: Insight into the Evolution, Biogeography, Habitat Preferences and Sensory Ecology of Early Boas

Agustín Scanferla, Krister T. Smith
2020 Diversity  
Our knowledge of early evolution of snakes is improving, but all that we can infer about the evolution of modern clades of snakes such as boas (Booidea) is still based on isolated bones.  ...  Our analyses indicate that Eoconstrictor was a terrestrial, medium- to large-bodied snake that bore labial pit organs in the upper jaw, the earliest evidence that the visual system in snakes incorporated  ...  Conflicts of Interest: The authors declare no conflict of interest. Diversity 2020, 12, 100  ... 
doi:10.3390/d12030100 fatcat:bamx3arcx5cfhdkv7mlclzia4e

Automatic Liver Segmentation from Abdominal MRI Images using Active Contours

Roaa G., Noha A., Salma Hamdy, Mostafa G.
2017 International Journal of Computer Applications  
Instead, the proposed system automatically detects and segments the liver through relying on its anatomical features for detection and using active contour for segmentation.  ...  The system works without the need for setting manual seed points or setting a region of interest.  ...  A manual delineation of cross-sections of the anatomical structure in 2D multiplaner reconstruction views is constructed. Then an initial 3D surface was reconstructed using radial basis functions.  ... 
doi:10.5120/ijca2017915512 fatcat:yca6xkl5vjgs3cpcmilyyxfw2e

Tooth Segmentation of 3D Scan Data Using Generative Adversarial Networks

Kim, Cho, Kim, Chang, Kim
2020 Applied Sciences  
Finally, the reconstructed two-dimensional (2D) images are stacked to a three-dimensional (3D) image and merged with the data where the occlusion areas have been removed.  ...  To solve the above problem, this study proposes a method of reconstructing occluded areas using a generative adversarial network (GAN).  ...  Acknowledgments: We are grateful to the Department of Orthodontics, Korea University Anam Hospital for providing the patients' scan data and the tooth pin model.  ... 
doi:10.3390/app10020490 fatcat:cpra63zkerdbhfdl55vjto43re

The ecological origins of snakes as revealed by skull evolution

Filipe O. Da Silva, Anne-Claire Fabre, Yoland Savriama, Joni Ollonen, Kristin Mahlow, Anthony Herrel, Johannes Müller, Nicolas Di-Poï
2018 Nature Communications  
Our large-scale data reveal that whereas the most recent common ancestor of crown snakes had a small skull with a shape undeniably adapted for fossoriality, all snakes plus their sister group derive from  ...  all key internal nodes relative to the origin and diversification of snakes ( 1, MRCA of Toxicofera; 2, MRCA of snakes and their sister group; 3, MRCA of crown snakes; 4, MRCA of Alethinophidia).  ...  sharing; Jarmo Lanki (Tropicario Helsinki) for eggs from some snake species; Arto Koistinen (University of Kuopio, Finland) as well as Aki Kallonen and Heikki Suhonen (University of Helsinki, Finland)  ... 
doi:10.1038/s41467-017-02788-3 pmid:29371624 pmcid:PMC5785544 fatcat:qy7ha362pzeyrlfn5d2po3ayye

Prostate Boundary Detection From Ultrasonographic Images

Fan Shao, Keck Voon Ling, Wan Sing Ng, Ruo Yun Wu
2003 Journal of ultrasound in medicine  
Moreover, verification methods for estimating the accuracies of the algorithms reported in the literature are discussed as well. Results.  ...  Those model-based methods that minimize user involvement but allow for interactive guidance of experts will likely be most immediately successful. Figure 2.  ...  The difference of the original deformed contour and the reconstructed contour was further used to define inner snake forces.  ... 
doi:10.7863/jum.2003.22.6.605 pmid:12795557 fatcat:5ohgts6ygjfzbgyj3wpoxcwqrq

Fast volumetric mapping of human brain slices [article]

Luca Pesce, Annunziatina Laurino, Vladislav Gavryusev, Giacomo Mazzamuto, Giuseppe Sancataldo, Marina Scardigli, Matteo Roffilli, Ludovico Silvestri, Irene Costantini, Francesco Saverio Pavone
2020 bioRxiv   pre-print
We perform volumetric imaging of large sequentially stained human brain slices, labelled for two different neuronal markers NeuN and GAD67, discriminating the inhibitory population and reconstructing the  ...  We still lack a detailed map of the anatomical disposition of neurons in the human brain.  ...  Next, to evaluate the cytoarchitecture of our sample, a fast down sampled 3D reconstruction is performed using Zsticher.  ... 
doi:10.1101/2020.10.27.357186 fatcat:3w5lxa6embeh3prnxqoclw4zwy

A novel shape-based loss function for machine learning-based seminal organ segmentation in medical imaging [article]

Reza Karimzadeh, Emad Fatemizadeh, Hossein Arabi
2022 arXiv   pre-print
The key idea was to use the reconstruction weights to discriminate valid outcomes from outliers/erroneous estimations.  ...  For segmentation tasks, these methods normally rely on minimizing a cost/loss function that is designed to maximize the overlap between the estimated target and the ground-truth mask delineated by the  ...  Therefore, a highly discriminative shape-based feature extraction scheme is proposed in this study for 3D anatomical organ segmentation, based on the extracted eigenvectors from the training dataset.  ... 
arXiv:2203.03336v1 fatcat:xikdkstt4rbuxeysnae3sf2oh4

A review of vessel extraction techniques and algorithms

Cemil Kirbas, Francis Quek
2004 ACM Computing Surveys  
While we have mainly targeted the extraction of blood vessels, neurosvascular structure in particular, we have also reviewed some of the segmentation methods for the tubular objects that show similar characteristics  ...  We put the various vessel extraction approaches and techniques in perspective by means of a classification of the existing research.  ...  Molina et al. [1998] use 3D snakes to reconstruct 3D catheter paths from biplane angiograms.  ... 
doi:10.1145/1031120.1031121 fatcat:7zms3avnjrfd7plwcitqx3cdiq

From lung images to lung models: A review

S. L. A. Lee, A. Z. Kouzani, E. J. Hu
2008 2008 IEEE International Joint Conference on Neural Networks (IEEE World Congress on Computational Intelligence)  
This paper presents a review of the existing works on automatic formation of 3D lung models from 2D lung images. A common framework for 3D lung modeling is proposed.  ...  Automated 3D lung modeling involves analyzing 2D lung images and reconstructing a realistic 3D model of the lung.  ...  ACKNOWLEDGMENT The support of the Victorian Partnership for Advanced Computing (VPAC) lUlder an e-Research Program Grants Scheme is gratefully acknowledged  ... 
doi:10.1109/ijcnn.2008.4634128 dblp:conf/ijcnn/LeeKH08 fatcat:74rnkdvoo5cxhmopimvz7kdwtu

Kernel Fisher discriminant for shape-based classification in epilepsy

S. Kodipaka, B.C. Vemuri, A. Rangarajan, C.M. Leonard, I. Schmallfuss, S. Eisenschenk
2007 Medical Image Analysis  
In this paper, we present the application of kernel Fisher discriminant in the statistical analysis of shape deformations that indicate the hemispheric location of an epileptic focus.  ...  Using a novel feature, namely, the normalized histogram of the 3D displacement field, we also achieved significant improvement over the volume-based feature in classifying the patients as belonging to  ...  The scheme has the scope of improvement by using an incremental learning process and needs to be tested for 3D anatomic structures.  ... 
doi:10.1016/j.media.2006.10.002 pmid:17157051 pmcid:PMC2267687 fatcat:iqrmql4zgbctnoqcodedpmfhcu

Medical computer vision, virtual reality and robotics

Nicholas Ayache
1995 Image and Vision Computing  
; 3D motion analysis; and 3D simulation of therapy.  ...  I then present some of the past and current work done in our research group EPIDAURE* at INRIA, on the following topics: segmentation of 3D images; 3D shape modelling; 3D rigid and nonrigid registration  ...  , in order to track and describe rigid and nonrigid motion of 3D anatomical structures. This is necessary for the quantification of motion needs.  ... 
doi:10.1016/0262-8856(95)99717-f fatcat:r2on35nba5ap7h2ojxa4zfrf64
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