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A neural network classifier capable of recognizing the patterns of all major subcellular structures in fluorescence microscope images of HeLa cells
TLDR
We describe an approach to quantitative description of protein localization patterns and demonstrated that this approach can reliably distinguish the patterns of all major organelles in HeLa cells. Expand
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Nuclear segmentation in microscope cell images: A hand-segmented dataset and comparison of algorithms
TLDR
We hand-segmented a set of 97 fluorescence microscopy images (a total of 4009 cells) and objectively evaluated some previously proposed segmentation algorithms. Expand
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Effect of Bafilomycin A1 and Nocodazole on Endocytic Transport in HeLa Cells: Implications for Viral Uncoating and Infection
ABSTRACT Bafilomycin A1 (baf), a specific inhibitor of vacuolar proton ATPases, is commonly employed to demonstrate the requirement of low endosomal pH for viral uncoating. However, in certain cellExpand
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Assay of vacuolar pH in yeast and identification of acidification-defective mutants.
As part of a genetic analysis of the biogenesis and function of the vacuole (lysosome) in the yeast Saccharomyces cerevisiae, assays of vacuolar pH were developed and used to identify mutantsExpand
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Boosting accuracy of automated classification of fluorescence microscope images for location proteomics
TLDR
We evaluate eight state-of-the-art classifiers and features to improve the recognition of protein subcellular location patterns in both 2D and 3D fluorescence microscope images. Expand
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Transferrin recycling and dextran transport to lysosomes is differentially affected by bafilomycin, nocodazole, and low temperature
The effects of bafilomycin, nocodazole, and reduced temperature on recycling and the lysosomal pathway have been investigated in various cultured cell lines and have been shown to vary dependent onExpand
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A framework for the automated analysis of subcellular patterns in human protein atlas images.
The systematic study of subcellular location patterns is required to fully characterize the human proteome, as subcellular location provides critical context necessary for understanding a protein'sExpand
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Endosome pH measured in single cells by dual fluorescence flow cytometry: rapid acidification of insulin to pH 6
The acidification of various ligands was measured on a cell by cell basis for cell suspensions by correlated dual fluorescence flow cytometry. Mouse 3T3 cells were incubated with a mixture ofExpand
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Automated recognition of patterns characteristic of subcellular structures in fluorescence microscopy images.
TLDR
Methods for numerical description and subsequent classification of cellular protein localization patterns using Zernike moments and Haralick texture features are described. Expand
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Biological imaging software tools
TLDR
We review each computational step that biologists encounter when dealing with digital images, the inherent challenges and the overall status of available software for bioimage informatics, focusing on open-source options. Expand
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