| 1. |
- Allalou, Amin, 1981-, et al.
(författare)
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Approaches for increasing throughput andinformation content of image-based zebrafishscreens
- 2011
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Ingår i: Proceeding of SSBA 2011.
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- Microscopy in combination with image analysis has emerged as one of the most powerful and informativeways to analyze cell-based high-throughput screening (HTS) samples in experiments designed to uncover novel drugs and drug targets. However, many diseases and biological pathways can be better studied in whole animals, particularly diseases and pathways that involve organ systems and multicellular interactions, such as organ development, neuronal degeneration and regeneration, cancer metastasis, infectious disease progression and pathogenesis. The zebrafish is a wide-spread and popular vertebrate model of human organfunction and development, and it is unique in the sense that large-scale in vivo genetic and chemical studies are feasible due in part to its small size, optical transparency,and aquatic habitat. To improve the throughput and complexity of zebrafish screens, a high-throughput platform for cellular-resolution in vivo chemical and genetic screens on zebrafish larvae has been developed at Yanik lab at Research Laboratory of Electronics, MIT, USA. The system loads live zebrafish from reservoirs or multiwell plates, positions and rotates them for high-speed confocal imaging of organs,and dispenses the animals without damage. We present two improvements to the described system, including automation of positioning of the animals and a novel approach for brightfield microscopy tomographic imaging of living animals.
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| 2. |
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| 3. |
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| 4. |
- Curic, Vladimir, et al.
(författare)
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Adaptive mathematical morphology – A survey of the field
- 2014
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Ingår i: Pattern Recognition Letters. - : Elsevier BV. - 0167-8655 .- 1872-7344. ; 47, s. 18-28
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Tidskriftsartikel (refereegranskat)abstract
- We present an up-to-date survey on the topic of adaptive mathematical morphology. A broad review of research performed within the field is provided, as well as an in-depth summary of the theoretical advances within the field. Adaptivity can come in many different ways, based on different attributes, measures, and parameters. Similarities and differences between a few selected methods for adaptive structuring elements are considered, providing perspective on the consequences of different types of adaptivity. We also provide a brief analysis of perspectives and trends within the field, discussing possible directions for future studies.
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| 5. |
- Curic, Vladimir, et al.
(författare)
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Adaptive structuring elements based on salience distance transform
- 2012
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Ingår i: In Proceedings of Swedish Society for Image Analysis, SSBA 2012. - KTH, Stockholm.
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- Spatially adaptive structuring elements adjust their shape to the local structures in the image, and are often defined by a ball in a geodesic distance or gray-weighted distance metric space. This paper introduces salience adaptive structuring elements as spatially variant structuring elements that modify not only their shape, but also their size according to the salience of the edges in the image. Consequently they have good properties for filtering.
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| 6. |
- Ćurić, Vladimir, 1981-
(författare)
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Distance Functions and Their Use in Adaptive Mathematical Morphology
- 2014
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Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract
- One of the main problems in image analysis is a comparison of different shapes in images. It is often desirable to determine the extent to which one shape differs from another. This is usually a difficult task because shapes vary in size, length, contrast, texture, orientation, etc. Shapes can be described using sets of points, crisp of fuzzy. Hence, distance functions between sets have been used for comparing different shapes.Mathematical morphology is a non-linear theory related to the shape or morphology of features in the image, and morphological operators are defined by the interaction between an image and a small set called a structuring element. Although morphological operators have been extensively used to differentiate shapes by their size, it is not an easy task to differentiate shapes with respect to other features such as contrast or orientation. One approach for differentiation on these type of features is to use data-dependent structuring elements.In this thesis, we investigate the usefulness of various distance functions for: (i) shape registration and recognition; and (ii) construction of adaptive structuring elements and functions.We examine existing distance functions between sets, and propose a new one, called the Complement weighted sum of minimal distances, where the contribution of each point to the distance function is determined by the position of the point within the set. The usefulness of the new distance function is shown for different image registration and shape recognition problems. Furthermore, we extend the new distance function to fuzzy sets and show its applicability to classification of fuzzy objects.We propose two different types of adaptive structuring elements from the salience map of the edge strength: (i) the shape of a structuring element is predefined, and its size is determined from the salience map; (ii) the shape and size of a structuring element are dependent on the salience map. Using this salience map, we also define adaptive structuring functions. We also present the applicability of adaptive mathematical morphology to image regularization. The connection between adaptive mathematical morphology and Lasry-Lions regularization of non-smooth functions provides an elegant tool for image regularization.
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| 7. |
- Curic, Vladimir, 1981-, et al.
(författare)
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Distance measures between digital fuzzy objects and their applicability in image processing
- 2011
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Ingår i: Combinatorial Image Analysis. - Berlin, Heidelberg : Springer Berlin/Heidelberg. - 9783642210723 ; 6636, s. 385-397
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Konferensbidrag (refereegranskat)abstract
- We present two different extensions of the Sum of minimal distances and the Complement weighted sum of minimal distances to distances between fuzzy sets. We evaluate to what extent the proposed distances show monotonic behavior with respect to increasing translation and rotation of digital objects, in noise free, as well as in noisy conditions. Tests show that one of the extension approaches leads to distances exhibiting very good performance. Furthermore, we evaluate distance based classification of crisp and fuzzy representations of objects at a range of resolutions. We conclude that the proposed distances are able to utilize the additional information available in a fuzzy representation, thereby leading to improved performance of related image processing tasks.
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| 8. |
- Curic, Vladimir, et al.
(författare)
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Mathematical model for efficient water flow management
- 2010
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Ingår i: Nonlinear Analysis: Real World Applications. - : Elsevier BV. - 1468-1218.
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Tidskriftsartikel (refereegranskat)abstract
- A mathematical model for the optimization of pump scheduling in a water distribution system is proposed. The water system we consider works without a large water storage facility and hence the mass balance principle is the base for the model. A result concerning the pressure drop after T-junctions is the main simplification we propose. An optimization problem is formulated and solved by a Branch and Bound method for a real water distribution system using data from a small city in Serbia.
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| 9. |
- Curic, Vladimir, et al.
(författare)
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Salience adaptive structuring elements
- 2012
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Ingår i: IEEE Journal on Selected Topics in Signal Processing. - 1932-4553 .- 1941-0484. ; 6:7, s. 809-819
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Tidskriftsartikel (refereegranskat)abstract
- Spatially adaptive structuring elements adjust their shape to the local structures in the image, and are often defined by a ball in a geodesic distance or gray-weighted distance metric space. This paper introduces salience adaptive structuring elements as spatially variant structuring elements that modify not only their shape, but also their size according to the salience of the edges in the image. Morphological operators with salience adaptive structuring elements shift edges with high salience to a less extent than those with low salience. Salience adaptive structuring elements are less flexible than morphological amoebas and their shape is less affected by noise in the image. Consequently, morphological operators using salience adaptive structuring elements have better properties.
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| 10. |
- Curic, Vladimir, et al.
(författare)
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Salience-Based Parabolic Structuring Functions
- 2013
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Ingår i: Mathematical Morphology and Its Applications to Signal and Image Processing. - Berlin, Heidelberg : Springer Berlin/Heidelberg. - 9783642382932 ; 7883, s. 183-194
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Konferensbidrag (refereegranskat)abstract
- It has been shown that the use of the salience map based on the salience distance transform can be useful for the construction of spatially adaptive structuring elements. In this paper, we propose salience-based parabolic structuring functions that are defined for a fixed, predefined spatial support, and have low computational complexity. In addition, we discuss how to properly define adjunct morphological operators using the new spatially adaptive structuring functions. It is also possible to obtain flat adaptive structuring elements by thresholding the salience-based parabolic structuring functions.
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