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97
Segmentation and quantification of subcellular structures in fluorescence microscopy images using Squassh
- 2015 by the authors; licensee MDPI
"... IntroDuctIon An increasing amount of biological and medical research relies on single-cell imaging to obtain information about the phenotypic response of cells to a variety of chemical, mechanical and genetic perturbations. Although it is possible to distinguish obvious phenotypes by eye, computati ..."
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Cited by 2 (0 self)
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-color channels, and it cannot be used to infer patterns within a single channel or long-range order in the object distribution across channels. A separate method is available for that 9 and implemented in software The Squassh protocol is limited to fluorescence microscopy. Other imaging modalities
Spectral Self-Interference Fluorescence Microscopy for Subcellular Imaging
"... Abstract—Spectral self-interference fluorescence microscopy (SSFM) has been recently developed to determine the axial position of fluorescent emitters placed on reflecting dielectric structures. In this paper, we review SSFM with emphasis on its axial localization capabilities. We show that there is ..."
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of less than 2 nm. We demonstrate axial localization by using artificial samples. We also probe the membrane topography of a Shigella flexneri bacterium, several micrometers away from a solid support. Index Terms—Fluorescence microscopy, localization, selfinterference, subcellular imaging. I.
fluorescence microscopy] The Colored Revolution
"... With the recent development of fluorescent probes and new high-resolution microscopes, biological imaging has entered a new era and is presently having a profound impact on the way research is being conducted in the life sciences. Biologists have come to depend more and more on imaging. They can now ..."
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Cited by 1 (0 self)
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now visualize subcellular components and processes in vivo, both structurally and functionally. Observations can be made in two or three dimensions, at different wavelengths (spectroscopy), possibly with time-lapse imaging to investigate cellular dynamics. The observation of many biological processes
Deconvolving active contours for fluorescence microscopy images
- In Proc. Intl. Symp. Visual Computing (ISVC
, 2009
"... Abstract. We extend active contours to constrained iterative decon-volution by replacing the external energy function with a model-based likelihood. This enables sub-pixel estimation of the outlines of diffraction-limited objects, such as intracellular structures, from fluorescence mi-crographs. We ..."
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Cited by 5 (3 self)
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Abstract. We extend active contours to constrained iterative decon-volution by replacing the external energy function with a model-based likelihood. This enables sub-pixel estimation of the outlines of diffraction-limited objects, such as intracellular structures, from fluorescence mi-crographs. We
Automated Determination of Protein Subcellular Locations from 3D Fluorescence Microscope Images
- Proc 2002 IEEE Intl Symp. Biomed Imaging (ISBI 2002
, 2002
"... Knowing the subcellular location of a protein is critical to a full understanding of its function, and automated, objective methods for assigning locations are needed as part of the characterization process for the thousands of proteins expressed in each cell type. Fluorescence microscopy is the mos ..."
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Cited by 32 (18 self)
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is the most common method used for determining subcellular location, and we have previously described automated systems that can recognize all major subcellular structures in 2D fluorescence microscope images. Here we show that 2D pattern recognition accuracy is dependent on the choice of the vertical
Drift Estimation in Sparse Sequential Dynamic Imaging: with Application to Nanoscale Fluorescence Microscopy
, 2014
"... A major challenge in many superresolution fluorescence microscopy techniques at the nanoscale such as stochastic / single marker switching (SMS) microscopy lies in the correct alignment of long sequences of sparse but spatially and temporally highly resolved images. This is caused by the temporal dr ..."
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A major challenge in many superresolution fluorescence microscopy techniques at the nanoscale such as stochastic / single marker switching (SMS) microscopy lies in the correct alignment of long sequences of sparse but spatially and temporally highly resolved images. This is caused by the temporal
Active Mask Framework for Segmentation of Fluorescence Microscope Images
"... m]]l]]s¶D]]¿÷mB]iv]b]oD]m¶¨]iv]§]iv]r]j]t¿rv]]irj]]t]]m] / | ap]]r¿]ÎNy]s¶D]]mb¶r]ix} Û]Ix]]rd]mb]} p—N]t]o%ism] in]ty]m] / || Û]Is]¡uÎc]rN]]riv]nd]p]*N]m]st¶ I always bow to Śri ̄ Śāradāmbā, the limitless ocean of the nectar of compassion, who bears a rosary, a vessel of nectar, the symbol of ..."
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of knowledge and a book in Her lotus hands. Dedicated to the Lotus Feet of the revered Sadguru. This thesis presents a new active mask (AM) framework and an algorithm for segmenta-tion of digital images, particularly those of punctate patterns from fluorescence microscopy. Fluorescence microscopy has greatly
Measuring Shape and Motion of White Blood Cells from Sequences of Fluorescence Microscopy Images
"... We present an image analysis system developed to measure the motion of white blood cells from a temporal sequence of fluorescence microscopy images. A twopass spatio-temporal segmentation system is used. Pixels are classified as cell and background pixels by an initial segmentation in the first pass ..."
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Cited by 2 (1 self)
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We present an image analysis system developed to measure the motion of white blood cells from a temporal sequence of fluorescence microscopy images. A twopass spatio-temporal segmentation system is used. Pixels are classified as cell and background pixels by an initial segmentation in the first
AUTOMATED PROTEOME-WIDE DETERMINATION OF SUBCELLULAR LOCATION USING HIGH THROUGHPUT MICROSCOPY
"... A major source of information for identifying subcellular location on a proteome-wide basis will be imaging of tagged proteins in living cells using fluorescence microscopy. We have previously developed automated systems to interpret images from such experiments and demonstrated that they can perfor ..."
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A major source of information for identifying subcellular location on a proteome-wide basis will be imaging of tagged proteins in living cells using fluorescence microscopy. We have previously developed automated systems to interpret images from such experiments and demonstrated that they can
Estimating the Motion of Plant Root Cells from in vivo Confocal Laser Scanning Microscopy Images
, 2009
"... This is an author-created version of a paper to be published in the Springer journal Machine Vision and Applications. The published version will be available at www.springerlink.com) Images of cellular structures in growing plant roots acquired using confocal laser scanning microscopy (CLSM) have so ..."
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Cited by 4 (1 self)
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This is an author-created version of a paper to be published in the Springer journal Machine Vision and Applications. The published version will be available at www.springerlink.com) Images of cellular structures in growing plant roots acquired using confocal laser scanning microscopy (CLSM) have
Results 1 - 10
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97
