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Svensson, Stina
Publications (10 of 34) Show all publications
Svensson, S. (2008). Aspects on the reverse fuzzy distance transform. Pattern Recognition Letters, 29(7), 888-896
Open this publication in new window or tab >>Aspects on the reverse fuzzy distance transform
2008 (English)In: Pattern Recognition Letters, ISSN 0167-8655, E-ISSN 1872-7344, Vol. 29, no 7, p. 888-896Article in journal (Refereed) Published
Abstract [en]

We extend the concept of the reverse distance transform for binary images to a fuzzy framework, leading to the reverse fuzzy distance transform. Furthermore, we introduce centres of maximal fuzzy balls intended for, e.g. fuzzy distance based skeletonization of a fuzzy object. Finally, we propose to use the reverse fuzzy distance transform as an alternative region growing process to the seeded watershed segmentation, in order to further emphasize the shape of fuzzy objects. We make a comparison using an application where the aim is to identify the cytoplasms in fluorescence microscopy images of cells.

Keywords
Fuzzy distance, Region growing, Watershed segmentation
National Category
Computer Vision and Robotics (Autonomous Systems)
Research subject
Mathematics
Identifiers
urn:nbn:se:uu:diva-87948 (URN)10.1016/j.patrec.2008.01.006 (DOI)000255436100006 ()
Available from: 2009-01-16 Created: 2009-01-16 Last updated: 2018-01-13Bibliographically approved
Axelsson, M., Svensson, S. & Borgefors, G. (2007). 2D Ring Artifact Reduction of X-ray Tomography Images. In: Proceedings SSBA 2007: Symposium on Image Analysis, Linköping, March 14-15.
Open this publication in new window or tab >>2D Ring Artifact Reduction of X-ray Tomography Images
2007 (English)In: Proceedings SSBA 2007: Symposium on Image Analysis, Linköping, March 14-15, 2007Conference paper, Published paper (Other scientific)
Identifiers
urn:nbn:se:uu:diva-11266 (URN)
Available from: 2007-08-21 Created: 2007-08-21
Svensson, S. (2007). A decomposition scheme for 3D fuzzy objects based on fuzzy distance information. Pattern Recognition Letters, 28(2), 224-232
Open this publication in new window or tab >>A decomposition scheme for 3D fuzzy objects based on fuzzy distance information
2007 (English)In: Pattern Recognition Letters, ISSN 0167-8655, E-ISSN 1872-7344, Vol. 28, no 2, p. 224-232Article in journal (Refereed) Published
Abstract [en]

A decomposition scheme for 3D fuzzy objects is presented. The decomposition is guided by a fuzzy distance transform (FDT) of the fuzzy object and aims to decompose the fuzzy object into simpler parts. Relevant voxels, corresponding to the “centres” of the parts, are detected on the FDT and suitably grouped, using a hierarchical clustering technique, into significant seeds for the decomposition. A region growing process is then applied to the seeds. The region growing process makes use of the reverse fuzzy distance transform, which is introduced in this manuscript. The decomposition scheme is illustrated using real data from different applications of which one, namely the identification of the three parts of the Immunoglobulin G antibody imaged using cryo electron tomography, is described more in detail.

Keywords
Fuzzy shape analysis, Fuzzy (reverse) distance transform, Hierarchical clustering, Cryo electron tomography, Immunoglobulin G
National Category
Engineering and Technology
Identifiers
urn:nbn:se:uu:diva-21204 (URN)10.1016/j.patrec.2006.07.007 (DOI)000242780800006 ()
Available from: 2006-12-15 Created: 2006-12-15 Last updated: 2017-12-08Bibliographically approved
Svensson, S. (2007). Centres of maximal balls extracted from a fuzzy distance transform. In: Procedings of 8th International Symposium on Mathematical Morphology (ISMM 2007).
Open this publication in new window or tab >>Centres of maximal balls extracted from a fuzzy distance transform
2007 (English)In: Procedings of 8th International Symposium on Mathematical Morphology (ISMM 2007), 2007Conference paper, Published paper (Refereed)
National Category
Computer Vision and Robotics (Autonomous Systems)
Identifiers
urn:nbn:se:uu:diva-12694 (URN)
Available from: 2008-01-10 Created: 2008-01-10 Last updated: 2018-01-12Bibliographically approved
Gedda, M. & Svensson, S. (2007). Flexibility Description of the MET Protein Stalk Based on the Use of Non-Uniform B-Splines. In: 12th International Conference on Computer Analysis of Images and Patterns (pp. 173-180).
Open this publication in new window or tab >>Flexibility Description of the MET Protein Stalk Based on the Use of Non-Uniform B-Splines
2007 (English)In: 12th International Conference on Computer Analysis of Images and Patterns, 2007, p. 173-180Conference paper, Published paper (Refereed)
Abstract [en]

The MET protein controls growth, invasion, and metastasis in cancer cells and is thereby of interest to study, for example from a structural point of view. For individual particle imaging by Cryo-Electron Tomography of the MET protein, or other proteins, dedicated image analysis methods are required to extract information in a robust way as the images have low contrast and resolution (with respect to the size of the imaged structure). We present a method to identify the two parts of the MET protein, Beta-propeller and stalk, using a fuzzy framework. Furthermore, we describe how a representation of the MET stalk, denoted stalk curve, can be identified based on the use of non-uniform B-splines. The stalk curve is used to extract relevant geometrical information about the stalk, e.g., to facilitate curvature and length measurements.

Keywords
Cryo-ET, fuzzy distance, geometrical feature extraction
Identifiers
urn:nbn:se:uu:diva-11902 (URN)doi:10.1007/978-3-540-74272-2_22 (DOI)978-3-540-74271-5 (ISBN)
Available from: 2007-11-05 Created: 2007-11-05 Last updated: 2010-03-25
Norell, K., Lindblad, J. & Svensson, S. (2007). Grey Weighted Polar Distance Transform for Outlining Circular and Approximately Circular Objects. In: 14th International Conference on Image Analysis and Processing: ICIAP 2007 (pp. 647-652).
Open this publication in new window or tab >>Grey Weighted Polar Distance Transform for Outlining Circular and Approximately Circular Objects
2007 (English)In: 14th International Conference on Image Analysis and Processing: ICIAP 2007, 2007, p. 647-652Conference paper, Published paper (Refereed)
Abstract [en]

We introduce the polar distance transform and the grey weighted polar distance transform for computation of minimum cost paths preferring circular shape, as well as give algorithms for implementations in a digital setting. An alternative to the polar distance transform is to transform the image to polar coordinates, and then apply a Cartesian distance transform. By using the polar distance transform, re-sampling of the image and interpolation of new pixel values are avoided. We also handle the case of grey weighted distance transform in a $5\times 5$ neighbourhood, which, to our knowledge, is new. Initial results of using the grey weighted polar distance transform to outline annual rings in images of log end faces are presented.

National Category
Computer Vision and Robotics (Autonomous Systems)
Identifiers
urn:nbn:se:uu:diva-12282 (URN)10.1109/ICIAP.2007.74 (DOI)0-7695-2877-5 (ISBN)
Available from: 2007-12-10 Created: 2007-12-10 Last updated: 2018-08-24Bibliographically approved
Strand, R., Malmberg, F. & Svensson, S. (2007). Minimal Cost-Path for Path-Based Distances. In: Proceedings of 5th International Symposium on Image and Signal Processing and Analysis (ISPA 2007) (pp. 379-384).
Open this publication in new window or tab >>Minimal Cost-Path for Path-Based Distances
2007 (English)In: Proceedings of 5th International Symposium on Image and Signal Processing and Analysis (ISPA 2007), 2007, p. 379-384Conference paper, Published paper (Refereed)
Abstract [en]

Distance functions defined by the minimal cost-path using weights and neighbourhood sequences (n.s.) are considered for the constrained distance transform (CDT). The CDT is then used to find one minimal cost-path between two points. The behaviour of some path-based distance functions is analyzed and a new error function is introduced. It is concluded that the weighted n.s.-distance with two weights (3 x 3 neighbourhood) and the weighted distance with three weights (5 x 5 neighbourhood) have similar properties in terms of minimal cost-path computation, while the former is more efficient to compute.

National Category
Computer Vision and Robotics (Autonomous Systems)
Identifiers
urn:nbn:se:uu:diva-12585 (URN)doi:10.1109/ISPA.2007.4383723 (DOI)978-953-184-116-0 (ISBN)
Available from: 2008-01-07 Created: 2008-01-07 Last updated: 2018-01-12
Bongini, L., Fanelli, D., Svensson, S., Gedda, M. & Piazza, F. (2007). Resolving the geometry of biomolecules imaged by cryo electron tomography. Journal of Microscopy, 228(2), 174-184
Open this publication in new window or tab >>Resolving the geometry of biomolecules imaged by cryo electron tomography
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2007 (English)In: Journal of Microscopy, ISSN 0022-2720, E-ISSN 1365-2818, Vol. 228, no 2, p. 174-184Article in journal (Refereed) Published
Abstract [en]

In this paper, we describe two methods for computerized analysis of cryo electron tomography reconstructions of biomolecules. Both methods aim at quantifying the degree of structural flexibility of macromolecules and eventually resolving the inner dynamics through automatized protocols. The first method performs a Brownian dynamics evolution of a simplified molecular model into a fictitious force field generated by the tomograms. This procedure enables us to dock the simplified model into the experimental profiles. The second uses a fuzzy framework to delineate the subparts of the proteins and subsequently determine their interdomain relations. The two methods are discussed and their complementarities highlighted with reference to the case of the immunoglobulin antibody. Both artificial maps, constructed from immunoglobulin G entries in the Protein Data Bank and real tomograms are analyzed. Robustness issues and agreement with previously reported measurements are discussed.

Keywords
brownian dynamic, fuzzy sets, immunoglobulin G, principle component analysis, protein data bank, volume images
National Category
Natural Sciences
Identifiers
urn:nbn:se:uu:diva-12695 (URN)10.1111/j.1365-2818.2007.01839.x (DOI)000250435600009 ()17970917 (PubMedID)
Available from: 2008-01-10 Created: 2008-01-10 Last updated: 2017-12-11Bibliographically approved
Nygård, P., Gradin, P., Gregersen, Ø., Lindblad, J., Axelsson, M., Svensson, S., . . . Borgefors, G. (2006). Damage Mechanisms in Paper. In: 2006 Progress in Paper Physics.
Open this publication in new window or tab >>Damage Mechanisms in Paper
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2006 (English)In: 2006 Progress in Paper Physics, 2006Conference paper, Published paper (Other academic)
National Category
Engineering and Technology
Identifiers
urn:nbn:se:uu:diva-21712 (URN)
Available from: 2007-01-03 Created: 2007-01-03 Last updated: 2018-08-24Bibliographically approved
Axelsson, M., Chinga, G., Svensson, S., Nygård, P., Malmberg, F., Solheim, O., . . . Borgefors, G. (2006). Detailed quantification of the 3D structure of newsprints in X-ray synchrotron radiation microtomography images. In: Progress in Paper Physics Seminar, Oxford, Ohio, 2006.
Open this publication in new window or tab >>Detailed quantification of the 3D structure of newsprints in X-ray synchrotron radiation microtomography images
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2006 (English)In: Progress in Paper Physics Seminar, Oxford, Ohio, 2006, 2006Conference paper, Published paper (Other academic)
National Category
Engineering and Technology
Identifiers
urn:nbn:se:uu:diva-18446 (URN)
Available from: 2006-12-21 Created: 2006-12-21 Last updated: 2018-08-24Bibliographically approved
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