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  • 1.
    Axelsson, Maria
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Chinga, Gary
    Svensson, Stina
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Nygård, Per
    Malmberg, Filip
    Solheim, Olav
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Detailed quantification of the 3D structure of newsprints in X-ray synchrotron radiation microtomography images2006In: Progress in Paper Physics Seminar, Oxford, Ohio, 2006, 2006Conference paper (Other academic)
  • 2.
    Bajic, Buda
    et al.
    Faculty of Technical Sciences, University of Novi Sad, Serbia.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Sladoje, Natasa
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Single image super-resolution reconstruction in presence of mixed Poisson-Gaussian noise2016In: 2016 SIXTH INTERNATIONAL CONFERENCE ON IMAGE PROCESSING THEORY, TOOLS AND APPLICATIONS (IPTA), IEEE, 2016Conference paper (Refereed)
    Abstract [en]

    Single image super-resolution (SR) reconstructionaims to estimate a noise-free and blur-free high resolution imagefrom a single blurred and noisy lower resolution observation.Most existing SR reconstruction methods assume that noise in theimage is white Gaussian. Noise resulting from photon countingdevices, as commonly used in image acquisition, is, however,better modelled with a mixed Poisson-Gaussian distribution. Inthis study we propose a single image SR reconstruction methodbased on energy minimization for images degraded by mixedPoisson-Gaussian noise.We evaluate performance of the proposedmethod on synthetic images, for different levels of blur andnoise, and compare it with recent methods for non-Gaussiannoise. Analysis shows that the appropriate treatment of signaldependentnoise, provided by our proposed method, leads tosignificant improvement in reconstruction performance.

  • 3.
    Bajic, Buda
    et al.
    Faculty of Technical Sciences, University of Novi Sad, Serbia.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Serbian Acad Arts & Sci, Math Inst, Belgrade, Serbia.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Serbian Acad Arts & Sci, Math Inst, Belgrade, Serbia.
    Blind restoration of images degraded with mixed poisson-Gaussian noise with application in transmission electron microscopy2016In: 2016 Ieee 13Th International Symposium On Biomedical Imaging (ISBI), IEEE, 2016, p. 123-127Conference paper (Other academic)
    Abstract [en]

    Noise and blur, present in images after acquisition, negatively affect their further analysis. For image enhancement when the Point Spread Function (PSF) is unknown, blind deblurring is suitable, where both the PSF and the original image are simultaneously reconstructed. In many realistic imaging conditions, noise is modelled as a mixture of Poisson (signal-dependent) and Gaussian (signal independent) noise. In this paper we propose a blind deconvolution method for images degraded by such mixed noise. The method is based on regularized energy minimization. We evaluate its performance on synthetic images, for different blur kernels and different levels of noise, and compare with non-blind restoration. We illustrate the performance of the method on Transmission Electron Microscopy images of cilia, used in clinical practice for diagnosis of a particular type of genetic disorders.

  • 4.
    Bajic, Buda
    et al.
    Faculty of Technical Sciences, University of Novi Sad, Serbia.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Restoration of images degraded by signal-dependent noise based on energy minimization: an empirical study2016In: Journal of Electronic Imaging (JEI), ISSN 1017-9909, E-ISSN 1560-229X, Vol. 25, no 4, article id 043020Article in journal (Refereed)
    Abstract [en]

    Most energy minimization-based restoration methods are developed for signal-independent Gaussian noise. The assumption of Gaussian noise distribution leads to a quadratic data fidelity term, which is appealing in optimization. When an image is acquired with a photon counting device, it contains signal-dependent Poisson or mixed Poisson–Gaussian noise. We quantify the loss in performance that occurs when a restoration method suited for Gaussian noise is utilized for mixed noise. Signal-dependent noise can be treated by methods based on either classical maximum a posteriori (MAP) probability approach or on a variance stabilization approach (VST). We compare performances of these approaches on a large image material and observe that VST-based methods outperform those based on MAP in both quality of restoration and in computational efficiency. We quantify improvement achieved by utilizing Huber regularization instead of classical total variation regularization. The conclusion from our study is a recommendation to utilize a VST-based approach combined with regularization by Huber potential for restoration of images degraded by blur and signal-dependent noise. This combination provides a robust and flexible method with good performance and high speed.

  • 5. Bajić, Buda
    et al.
    Lindblad, Joakim
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    An evaluation of potential functions for regularized image deblurring2014In: Image Analysis and Recognition: Part I, Springer Berlin/Heidelberg, 2014, p. 150-158Conference paper (Refereed)
  • 6. Bogren, Karin
    et al.
    Gamstedt, Kristofer
    Berthold, Fredrik
    Lindström, Mikael
    Nygård, Per
    Malmberg, Filip
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Axelsson, Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Svensson, Stina
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Stress transfer and failure in pulpfibre reinforced composites: Effects of microstructure characterized by Xray microtomography2006In: 2006 Progress in Paper Physics: A seminar, 2006Conference paper (Other academic)
  • 7.
    Bombrun, Maxime
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Ranefall, Petter
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Allalou, Amin
    Uppsala University, Science for Life Laboratory, SciLifeLab.
    Partel, Gabriele
    Uppsala University, Science for Life Laboratory, SciLifeLab.
    Solorzano, Leslie
    Uppsala University, Science for Life Laboratory, SciLifeLab.
    Qian, Xiaoyan
    Nilsson, Mats
    Wählby, Carolina
    Uppsala University, Science for Life Laboratory, SciLifeLab.
    Decoding gene expression in 2D and 3D2017In: Image Analysis: Part II, Springer, 2017, p. 257-268Conference paper (Refereed)
  • 8.
    Cristea, Alexander
    et al.
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience, Clinical Neurophysiology.
    Karlsson Edlund, Patrick
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Qaisar, Rizwan
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience, Clinical Neurophysiology.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Larsson, Lars
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience, Clinical Neurophysiology.
    Effects of ageing and gender on the spatial organization of nuclei in single human skeletal muscle cells2009In: Neuromuscular Disorders, ISSN 0960-8966, E-ISSN 1873-2364, Vol. 19, p. 605-606Article in journal (Refereed)
  • 9.
    Curic, Vladimir
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis.
    Sladoje, Natasa
    Faculty of Technical Sciences, University of Novi Sad, Serbia.
    Distance measures between digital fuzzy objects and their applicability in image processing2011In: Combinatorial Image Analysis / [ed] Jake Aggarwal, Reneta Barneva, Valentin Brimkov, Kostadin Koroutchev, Elka Koroutcheva, Springer , 2011, p. 385-397Conference paper (Refereed)
  • 10. Delic, Marija
    et al.
    Lindblad, Joakim
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    αLBP – a novel member of the Local Binary Pattern family based on α-cutting2015In: Proc. 9th International Symposium on Image and Signal Processing and Analysis, Piscataway, NJ: IEEE , 2015, p. 13-18Conference paper (Refereed)
  • 11. Drazic, Slobodan
    et al.
    Sladoje, Natasa
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Estimation of Feret's diameter from pixel coverage representation of a shape2016In: Pattern Recognition Letters, ISSN 0167-8655, E-ISSN 1872-7344, Vol. 80, p. 37-45Article in journal (Refereed)
  • 12.
    Gavrilovic, Milan
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Wählby, Carolina
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Algorithms for cross-talk suppression in fluorescence microscopy2008In: Medicinteknikdagarna 2008, 2008, p. 64-64Conference paper (Other academic)
    Abstract [en]

     

     

     

  • 13. Gupta, Anindya
    et al.
    Suveer, Amit
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Dragomir, Anca
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Clinical and experimental pathology.
    Sintorn, Ida-Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Natasa
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    False positive reduction of cilia detected in low resolution TEM images using a convolutional neural network2017In: Swedish Symposium on Image Analysis, Swedish Society for Automated Image Analysis , 2017Conference paper (Other academic)
  • 14. Gupta, Anindya
    et al.
    Suveer, Amit
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Dragomir, Anca
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Clinical and experimental pathology.
    Sintorn, Ida-Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Convolutional neural networks for false positive reduction of automatically detected cilia in low magnification TEM images2017In: Image Analysis: Part I, Springer, 2017, p. 407-418Conference paper (Refereed)
    Abstract
  • 15.
    Höglund, Anna-Stina
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Liu, Jingxia
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Karlsson, Patrick
    Interfaculty Units, Centre for Image Analysis. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Interfaculty Units, Centre for Image Analysis. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Borgefors, Gunilla
    Interfaculty Units, Centre for Image Analysis. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Bengtsson, Ewert
    Interfaculty Units, Centre for Image Analysis. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Larsson, Lars
    The spatial distribution of nuclei in single skeletal muscle cells as visualised by 3-D images:: the differences in organisation between species and between healthy cells and cells affected by disease2007In: Biophysical Journal: 637A-637A Suppl. S, 2007Conference paper (Other scientific)
  • 16.
    Karlsson Edlund, Patrick
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Non-uniform 3D distance transform for anisotropic signal correction in confocal image volumes of skeletal muscle cell nuclei2008In: Proc. 5th International Symposium on Biomedical Imaging, Piscataway, NJ: IEEE , 2008, p. 1363-1366Conference paper (Refereed)
  • 17.
    Karlsson, Patrick
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Höglund, Anna-Stina
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Klinisk neurofysiologi.
    Liu, Jingxia
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Klinisk neurofysiologi.
    Larsson, Lars
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Klinisk neurofysiologi.
    Analysis of Skeletal Fibers in Three Dimensional Images2007In: Medicinteknikdagarna 2007, 2007, p. 1-Conference paper (Other (popular science, discussion, etc.))
  • 18.
    Karlsson, Patrick
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Höglund, Anna-Stina
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Clinical Neurophysiology.
    Liu, Jingxia
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Clinical Neurophysiology.
    Larsson, Lars
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Neuroscience. Clinical Neurophysiology.
    Analysis of Skeletal Fibers in Three Dimensional Images: Methodological considerations2007In: XXXVIth European Muscle Conference of the European Society for Muscle Research: European Muscle Conference 2007, 2007, p. 130-Conference paper (Other academic)
    Abstract [en]

    Knowledge of the detailed three dimensional organization of nuclei in skeletal muscle fibers is of fundamental importance for the understanding of the basic mechanisms involved in muscle wasting associated with for example neuromuscular disorders and aging. An ongoing interdisciplinary collaboration between the Centre for Image Analysis (CBA), and the Muscle Research Group (MRG), both at Uppsala University, addresses the issue of spatial distribution of myonuclei using confocal microscopic techniques together with advanced methods for computerized image analysis.

    Performing quantitative analysis on true three dimensional volume images captured by confocal microscopy gives us the option to perform in-depth statistical analysis of the relationship between neighboring myonuclei. The three dimensional representation enables extraction of a number of features for individual myonuclei, e.g., size and shape of a nucleus, and the myonuclear domain (in which each myonucleus control the gene products). This project investigates data sets from single muscle fibers sampled from mouse, rat, pig, human, horse and rhino to determine the myonuclei arrangement between species with a 100,000 fold difference in body weight.

    The appropriate image analysis tools needed for gaining the understanding of organization in three dimensional volume images are developed within the project to facilitate the analysis of similarities between species, and unique features within a species. The accumulated understanding of the spatial organization of myonuclei, and the effect of individual myonuclei size, will lead to an increased knowledge of basic mechanisms underlying muscle wasting in various neuromuscular disorders. This knowledge will hopefully lead to new therapeutic strategies that can be evaluated in experimental animal models prior to clinical testing trials in patients.

  • 19.
    Lidayová, Kristína
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Sladoje, Nataša
    Frimmel, Hans
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing.
    Coverage segmentation of thin structures by linear unmixing and local centre of gravity attraction2013In: Proc. 8th International Symposium on Image and Signal Processing and Analysis, IEEE Signal Processing Society, 2013, p. 83-88Conference paper (Refereed)
  • 20.
    Lidayová, Kristína
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Frimmel, Hans
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing.
    Wang, Chunliang
    Smedby, Örjan
    Coverage segmentation of 3D thin structures2015In: Proc. 5th International Conference on Image Processing Theory, Tools and Applications, Piscataway, NJ: IEEE , 2015, p. 23-28Conference paper (Refereed)
  • 21.
    Lindblad, Joakim
    Uppsala University, Interfaculty Units, Centre for Image Analysis. Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Surface Area Estimation of Digitized 3D Objects using Weighted Local Configurations2005In: Image and Vision Computing, Vol. 23, no 2, p. 111-122Article in journal (Refereed)
    Abstract [en]

    We present a method for estimating surface area of three-dimensional objects in discrete binary images. A surface area weight is assigned to each 2×2×2 configuration of voxels. The total surface area of a digital object is given by a summation of the local area contributions. Optimal area weights are derived in order to provide an unbiased estimate with minimum variance for randomly oriented digitized planar surfaces. Due to co-appearance of certain voxel combinations, the optimal solution is not uniquely defined for planar surfaces. A Monte Carlo-based optimization of the estimator performance on the distribution of digitized balls of increasing radii is performed in order to uniquely determine the optimal surface area weights. The method is further evaluated on various objects in a range of sizes. A significant reduction of the error for small objects is observed. The algorithm is appealingly simple; the use of only a small local neighborhood enables efficient implementations in hardware and/or in parallel architectures.

  • 22.
    Lindblad, Joakim
    Uppsala University, Interfaculty Units, Centre for Image Analysis. Teknisk-naturvetenskapliga vetenskapsområdet, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Surface Volume Estimation of Digitized Hyperplanes Using Weighted Local Configurations2005In: Proceedings of Discrete Geometry for Computer Imagery, 2005, p. 252-262Conference paper (Refereed)
    Abstract [en]

    We present a method for estimating the surface volume of four-dimensional objects in discrete binary images. A surface volume weight is assigned to each 2 × 2 × 2 × 2 configuration of image elements. The total surface volume of a digital 4D object is given by a summation of the local volume contributions. Optimal volume weights are derived in order to provide an unbiased estimate with minimal variance for randomly oriented digitized planar hypersurfaces. Only 14 out of 64 possible boundary configurations appear on planar hypersurfaces. We use a marching hypercubes tetrahedrization to assign surface volume weights to the non-planar cases. The correctness of the method is verified on four-dimensional balls and cubes digitized in different sizes. The algorithm is appealingly simple; the use of only a local neighbourhood enables efficient implementations in hardware and/or in parallel architectures.

  • 23. Lindblad, Joakim
    et al.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Microscopy image enhancement for cost-effective cervical cancer screening2015In: Image Analysis, Springer, 2015, p. 440-451Conference paper (Refereed)
    Abstract [en]

    We propose a simple and fast method for microscopy imageenhancement and quantitatively evaluate its performance on a databasecontaining cell images obtained from microscope setups of several levelsof quality. The method utilizes an efficiently and accurately estimated rel-ative modulation transfer function to generate images of higher quality,starting from those of lower quality, by filtering in the Fourier domain.We evaluate the method visually and based on correlation coefficientand normalized mutual information. We conclude that enhanced imagesexhibit high similarity, both visually and in terms of information con-tent, with acquired high quality images. This is an important result forthe development of a cost-effective screening system for cervical cancer.

  • 24.
    Lindblad, Joakim
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lukic, Tibor
    Sladoje, Natasa
    Defuzzification by Feature Distance Minimization Based on DC Programming2007In: 5th International Symposium on Image and Signal Processing and Analysis, 2007: ISPA 2007, 2007, p. 373-378Conference paper (Refereed)
    Abstract [en]

    We introduce the use of DC programming, in combination with convex-concave regularization, as a deterministic approach for solving the optimization problem imposed by defuzzification by feature distance minimization. We provide a DC based algorithm for finding a solution to the defuzzification problem by expressing the objective function as a difference of two convex functions and iteratively solving a family of DC programs. We compare the performance with the previously recommended method, simulated annealing, on a number of test images. Encouraging results, together with several advantages of the DC based method, approve use of this approach, and motivate its further exploration.

  • 25.
    Lindblad, Joakim
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Sladoje, Natasa
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Lukic, Tibor
    Feature Based Defuzzification in Z² and Z³ Using a Scale Space Approach2006In: Discrete Geometry for Computer Imagery 13th International Conference, DGCI 2006, Szeged, Hungary, October 25-27, 2006. Proceedings: DGCI 2006, 2006, p. 379-390Conference paper (Refereed)
    Abstract [en]

    A defuzzification method based on feature distance minimization is further improved by incorporating into the distance function feature values measured on object representations at different scales. It is noticed that such an approach can improve defuzzification results by better preserving the properties of a fuzzy set; area preservation at scales in-between local (pixel-size) and global (the whole object) provides that characteristics of the fuzzy object are more appropriately exhibited in the defuzzification. For the purpose of comparing sets of different resolution, we propose a feature vector representation of a (fuzzy and crisp) set, utilizing a resolution pyramid. The distance measure is accordingly adjusted. The defuzzification method is extended to the 3D case. Illustrative examples are given.

  • 26. Lindblad, Joakim
    et al.
    Sladoje, Natasa
    Malm, Patrik
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Bengtsson, Ewert
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Moshavegh, Ramin
    Mehnert, Andrew
    Optimizing optics and imaging for pattern recognition based screening tasks2014In: Proc. 22nd International Conference on Pattern Recognition, IEEE Computer Society, 2014, p. 3333-3338Conference paper (Refereed)
    Abstract [en]

    We present a method for simulating lower quality images starting from higher quality ones, based on acquired image pairs from different optical setups. The method does not require estimates of point (or line) spread functions of the system, but utilizes the relative transfer function derived from images of real specimen of interest in the observed application. Thanks to the use of a larger number of real specimen, excellent stability and robustness of the method is achieved. The intended use is exploring the influence of image quality on features and classification accuracy in pattern recognition based screening tasks. Visual evaluation of the obtained images strongly confirms usefulness of the method. The approach is quantitatively evaluated by observing stability of feature values, proven useful for PAP-smear classification, between synthetic and real images from seven different microscope setups. The evaluation shows that features from the synthetically generated lower resolution images are as similar to features from real images at that resolution, as features from two different images of the same specimen, taken at the same low resolution, are to each other.

  • 27. Lukic, Tibor
    et al.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Natasa
    Regularized image denoising based on spectral gradient optimization2011In: Inverse Problems, ISSN 0266-5611, E-ISSN 1361-6420, Vol. 27, no 8, p. 085010:1-17Article in journal (Refereed)
    Abstract [en]

    Image restoration methods, such as denoising, deblurring, inpainting, etc, are often based on the minimization of an appropriately defined energy function. We consider energy functions for image denoising which combine a quadratic data-fidelity term and a regularization term, where the properties of the latter are determined by a used potential function. Many potential functions are suggested for different purposes in the literature. We compare the denoising performance achieved by ten different potential functions. Several methods for efficient minimization of regularized energy functions exist. Most are only applicable to particular choices of potential functions, however. To enable a comparison of all the observed potential functions, we propose to minimize the objective function using a spectral gradient approach; spectral gradient methods put very weak restrictions on the used potential function. We present and evaluate the performance of one spectral conjugate gradient and one cyclic spectral gradient algorithm, and conclude from experiments that both are well suited for the task. We compare the performance with three total variation-based state-of-the-art methods for image denoising. From the empirical evaluation, we conclude that denoising using the Huber potential (for images degraded by higher levels of noise; signal-to-noise ratio below 10 dB) and the Geman and McClure potential (for less noisy images), in combination with the spectral conjugate gradient minimization algorithm, shows the overall best performance.

  • 28.
    Malmberg, Filip
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis.
    Sladoje, Natasa
    Faculty of Technical Sciences, University of Novi Sad.
    Nyström, Ingela
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    A Graph-based Framework for Sub-pixel Image Segmentation2011In: Theoretical Computer Science, ISSN 0304-3975, E-ISSN 1879-2294, Vol. 412, no 15, p. 1338-1349Article in journal (Refereed)
    Abstract [en]

    Many image segmentation methods utilize graph structures for representing images, where the flexibility and generality of the abstract structure is beneficial. By using a fuzzy object representation, i.e., allowing partial belongingness of elements to image objects, the unavoidable loss of information when representing continuous structures by finite sets is significantly reduced,enabling feature estimates with sub-pixel precision.This work presents a framework for object representation based on fuzzysegmented graphs. Interpreting the edges as one-dimensional paths betweenthe vertices of a graph, we extend the notion of a graph cut to that of a located cut, i.e., a cut with sub-edge precision. We describe a method for computing a located cut from a fuzzy segmentation of graph vertices. Further,the notion of vertex coverage segmentation is proposed as a graph theoretic equivalent to pixel coverage segmentations and a method for computing such a segmentation from a located cut is given. Utilizing the proposed framework,we demonstrate improved precision of area measurements of synthetic two-dimensional objects. We emphasize that although the experiments presented here are performed on two-dimensional images, the proposed framework is defined for general graphs and thus applicable to images of any dimension.

  • 29.
    Norell, Kristin
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Svensson, Stina
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Grey Weighted Polar Distance Transform for Outlining Circular and Approximately Circular Objects2007In: 14th International Conference on Image Analysis and Processing: ICIAP 2007, 2007, p. 647-652Conference 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.

  • 30. Nygård, Per
    et al.
    Gradin, Per
    Gregersen, Øyvind
    Lindblad, Joakim
    Axelsson, Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Svensson, Stina
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Malmberg, Filip
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Damage Mechanisms in Paper2006In: 2006 Progress in Paper Physics, 2006Conference paper (Other academic)
  • 31.
    Sarve, Hamid
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Johansson, Carina B.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Franke-Stenport, Victoria
    Quantification of bone remodeling in the proximity of implants2007In: 12th Int. Conf. on Computer Analysis of Images and Patterns, 2007, p. 253-260Conference paper (Refereed)
    Abstract [en]

    In histomorphometrical investigations of bone tissue modeling around screw-shaped implants, the manual measurements of bone area and bone-implant contact length around the implant are time consuming and subjective. In this paper we propose an automatic image analysis method for such measurements. We evaluate different discriminant analysis methods and compare the automatic method with the manual one. The results show that the principal difference between the two methods occurs in length estimation, whereas the area measurement does not differ significantly. A major factor behind the dissimilarities in the results is believed to be misclassification of staining artifacts by the automatic method.

  • 32.
    Sarve, Hamid
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Johansson, Carina B.
    Extracting 3D information on bone remodeling in the proximity of titanium implants in SRμCT image volumes2011In: Computer Methods and Programs in Biomedicine, ISSN 0169-2607, E-ISSN 1872-7565, Vol. 102, no 1, p. 25-34Article in journal (Refereed)
  • 33.
    Sarve, Hamid
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Johansson, Carina B
    Department of Clinical Medicine, Örebro University.
    Franke-Stenport, Victoria
    Department of Biomaterials, Göteborg University.
    R, Bernhard
    Max-Bergmann-Center of Biomaterials, Institute of Materials Science, Dresden University of Technology.
    D, Scharnweber
    Max-Bergmann-Center of Biomaterials, Institute of Materials Science, Dresden University of Technology.
    Borgefors, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Sul, Y T
    Image Analysis of Bone Tissue Remodelling Around Implants2007In: European Conference on Biomaterials 2007, 2007Conference paper (Other (popular science, discussion, etc.))
    Abstract [en]

    Most of the state of the art image analysis programs available on the market have several things in common and irrespective of program, quite a lot of time is needed before results can be obtained.

    There is a need to search for quicker- and reliable histomorphometrical methods in order to screen the implant integration in bone tissue when working on 2D-cut and ground sections. There is a need to find reliable 3D methods in order to provide a better insight in bone modelling and remodelling around implants. We foresee that extracting information obtained with different techniques would help us to gain the understanding of integration of biomaterials.

    This material is a summary of an ongoing project in this topic in the following manner:

    (i) presenting an automatic method for performing quantitative measurements on the histological images and its evaluation.

    (ii)SRµCT imaging of samples and observations made so far.

  • 34.
    Sladoje, Natasa
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Mathematical Institute, Serbian Academy of Sciences and Arts, Belgrade, Serbia.
    Distance Between Vector-Valued Representations of Objects in Images with Application in Object Detection and Classification2017In: In Proc. of the 18th International Workshop on Combinatorial Image Analysis, IWCIA2017 / [ed] Brimkov, Valentin E. & Barneva, Reneta P., Springer, 2017, Vol. 10256, p. 243-255Conference paper (Refereed)
    Abstract [en]

    We present a novel approach to measuring distances between objects in images, suitable for information-rich object representations which simultaneously capture several properties in each image pixel. Multiple spatial fuzzy sets on the image domain, unified in a vector-valued fuzzy set, are used to model such representations. Distance between such sets is based on a novel point-to-set distance suitable for vector-valued fuzzy representations. The proposed set distance may be applied in, e.g., template matching and object classification, with an advantage that a number of object features are simultaneously considered. The distance measure is of linear time complexity w.r.t. the number of pixels in the image. We evaluate the performance of the proposed measure in template matching in presence of noise, as well as in object detection and classification in low resolution Transmission Electron Microscopy images.

  • 35.
    Sladoje, Natasa
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Centre for Image Analysis.
    Representation and Reconstruction of Fuzzy Disks by Moments2007In: Fuzzy sets and systems (Print), ISSN 0165-0114, E-ISSN 1872-6801, Vol. 158, no 5, p. 517-534Article in journal (Refereed)
    Abstract [en]

    In this paper, we analyze the representation and reconstruction of fuzzy disks by using moments. Both continuous and digital fuzzy disks are considered. A fuzzy disk is a convex fuzzy spatial set, where the membership of a point to the fuzzy disk depends only on the distance of the point to the centre of the disk. We show that, for a certain class of membership functions defining a fuzzy disk, there exists a one-to-one correspondence between the set of fuzzy disks and the set of their generalized moment representations. Theoretical error bounds for the accuracy of the estimation of generalized moments of a continuous fuzzy disk from the generalized moments of its digitization and, in connection with that, the accuracy of an approximate reconstruction of a continuous fuzzy disk from the generalized moments of its digitization, are derived. Defuzzification (reduction of a continuous fuzzy disk to a crisp representative) is also considered. A statistical study of generated synthetic objects complements the theoretical results.

  • 36. Sladoje, Natasa
    et al.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Nyström, Ingela
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Centre for Image Analysis. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Defuzzification of spatial fuzzy sets by feature distance minimization2011In: Image and Vision Computing, ISSN 0262-8856, E-ISSN 1872-8138, Vol. 29, p. 127-141Article in journal (Refereed)
  • 37.
    Suveer, Amit
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Natasa
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Dragomir, Anca
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Clinical and experimental pathology.
    Sintorn, Ida-Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Cilia ultrastructural visibility enhancement by multiple instance registration and super-resolution reconstruction2017In: Swedish Symposium on Image Analysis, Swedish Society for Automated Image Analysis , 2017Conference paper (Other academic)
  • 38.
    Suveer, Amit
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Serbian Acad Arts & Sci, Math Inst, Belgrade, Serbia.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Serbian Acad Arts & Sci, Math Inst, Belgrade, Serbia.
    Dragomir, Anca
    Uppsala University Hospital.
    Sintorn, Ida-Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction.
    Automated detection of cilia in low magnification transmission electron microscopy images using template matching2016In: Biomedical Imaging (ISBI), 2016 IEEE 13th International Symposium on, IEEE, 2016, p. 386-390Conference paper (Other academic)
    Abstract [en]

    Ultrastructural analysis using Transmission Electron Microscopy (TEM) is a common approach for diagnosing primary ciliary dyskinesia. The manually performed diagnostic procedure is time consuming and subjective, and automation of the process is highly desirable. We aim at automating the search for plausible cilia instances in images at low magnification, followed by acquisition of high magnification images of regions with detected cilia for further analysis. This paper presents a template matching based method for automated detection of cilia objects in low magnification TEM images, where object radii do not exceed 10 pixels. We evaluate the performance of a series of synthetic templates generated for this purpose by comparing automated detection with results manually created by an expert pathologist. The best template achieves a detection at equal error rate of 47% which suffices to identify densely populated cilia regions suitable for high magnification imaging.

  • 39.
    Suveer, Amit
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Dragomir, Anca
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Clinical and experimental pathology.
    Sintorn, Ida-Maria
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Enhancement of cilia sub-structures by multiple instance registration and super-resolution reconstruction2017In: Image Analysis: Part II, Springer, 2017, p. 362-374Conference paper (Refereed)
  • 40. Tanács, Attila
    et al.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Kato, Zoltan
    Estimation of linear deformations of 2D and 3D fuzzy objects2015In: Pattern Recognition, ISSN 0031-3203, E-ISSN 1873-5142, Vol. 48, no 4, p. 1391-1403Article in journal (Refereed)
  • 41.
    Öfverstedt, Johan
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Sladoje, Nataša
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Lindblad, Joakim
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Distance between vector-valued fuzzy sets based on intersection decomposition with applications in object detection2017In: Mathematical Morphology and its Applications to Signal and Image Processing, Springer, 2017, Vol. 10225, p. 395-407Conference paper (Refereed)
    Abstract [en]

    We present a novel approach to measuring distance between multi-channel images, suitably represented by vector-valued fuzzy sets. We first apply the intersection decomposition transformation, based on fuzzy set operations, to vector-valued fuzzy representations to enable preservation of joint multi-channel properties represented in each pixel of the original image. Distance between two vector-valued fuzzy sets is then expressed as a (weighted) sum of distances between scalar-valued fuzzy components of the transformation. Applications to object detection and classification on multi-channel images and heterogeneous object representations are discussed and evaluated subject to several important performance metrics. It is confirmed that the proposed approach outperforms several alternative single-and multi-channel distance measures between information-rich image/ object representations.

1 - 41 of 41
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