EVAnalyzer: High content imaging for rigorous characterisation of single extracellular vesicles using standard laboratory equipment and a new open‐source ImageJ/Fiji plugin
Sign Up to like & getrecommendations! Published in 2022 at "Journal of Extracellular Vesicles"
DOI: 10.1002/jev2.12282
Abstract: Abstract Extracellular vesicle (EV) research increasingly demands for quantitative characterisation at the single vesicle level to address heterogeneity and complexity of EV subpopulations. Emerging, commercialised technologies for single EV analysis based on, for example, imaging… read more here.
Keywords: plugin; using standard; characterisation single; characterisation ... See more keywords
NanoIndentation, an ImageJ Plugin for the Quantification of Cell Mechanics.
Sign Up to like & getrecommendations! Published in 2022 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-1816-5_6
Abstract: Growth and morphogenesis in plants depend on cell wall mechanics and on turgor pressure. Nanoindentation methods, such as atomic force microscopy (AFM), enable measurements of mechanical properties of a tissue at subcellular resolution, while confocal… read more here.
Keywords: cell mechanics; microscopy; plugin; nanoindentation ... See more keywords
An Abaqus plugin for evaluation of the Auxetic structure performance
Sign Up to like & getrecommendations! Published in 2021 at "Engineering With Computers"
DOI: 10.1007/s00366-021-01295-w
Abstract: The behavior of Auxetic structures is highly dependent on the geometric parameters of the unit cell. To achieve the desired behavior, it is necessary to perform a parametric study on the unit cell. A conventional… read more here.
Keywords: performance; abaqus plugin; parametric study; plugin ... See more keywords
An open-source plugin for OpenSim® to model the non-linear behaviour of dense connective tissues of the human knee at variable strain rates
Sign Up to like & getrecommendations! Published in 2019 at "Computers in biology and medicine"
DOI: 10.1016/j.compbiomed.2019.05.021
Abstract: The force-length characteristics of dense connective tissues (DCTs) vary non-linearly as a function of strain rate. However, there is no class of OpenSim® available to incorporate the effect of strain rate into the OpenSim® model.… read more here.
Keywords: class; connective tissues; plugin; strain ... See more keywords
EzColocalization: An ImageJ plugin for visualizing and measuring colocalization in cells and organisms
Sign Up to like & getrecommendations! Published in 2018 at "Scientific Reports"
DOI: 10.1038/s41598-018-33592-8
Abstract: Insight into the function and regulation of biological molecules can often be obtained by determining which cell structures and other molecules they localize with (i.e. colocalization). Here we describe an open source plugin for ImageJ… read more here.
Keywords: microscopy; ezcolocalization; measure colocalization; cells organisms ... See more keywords
An open-source, ready-to-use and validated ripple detector plugin for the Open Ephys GUI
Sign Up to like & getrecommendations! Published in 2022 at "Journal of Neural Engineering"
DOI: 10.1088/1741-2552/ac857b
Abstract: Objective. Sharp wave-ripples (SWRs, 100–250 Hz) are oscillatory events extracellularly recorded in the CA1 subfield of the hippocampus during sleep and quiet wakefulness. Many studies employed closed-loop strategies to either detect and abolish SWRs within… read more here.
Keywords: plugin; validated ripple; open ephys; ripple detector ... See more keywords
A novel Fiji/ImageJ plugin for the rapid analysis of blebbing cells
Sign Up to like & getrecommendations! Published in 2022 at "PLoS ONE"
DOI: 10.1101/2021.06.04.447112
Abstract: When confined, cells have recently been shown to undergo a phenotypic switch to what has been termed, fast amoeboid (leader bleb-based) migration. However, as this is a nascent area of research, few tools are available… read more here.
Keywords: cell; plugin; rapid analysis; migration ... See more keywords
A Bridging Centrality Plugin for GEPHI and a Case Study for Mycobacterium Tuberculosis H37Rv
Sign Up to like & getrecommendations! Published in 2021 at "IEEE/ACM Transactions on Computational Biology and Bioinformatics"
DOI: 10.1109/tcbb.2021.3120937
Abstract: Bridging Centrality (BriCe) is a popular measure that combines the Betweenness centrality and Bridging coefficient metrics to characterize nodes acting as a bridge among clusters. However, there were no implementations of the BriCe plugin that… read more here.
Keywords: brice; gephi; bridging centrality; plugin ... See more keywords
AutoNeuriteJ: An ImageJ plugin for measurement and classification of neuritic extensions
Sign Up to like & getrecommendations! Published in 2020 at "PLoS ONE"
DOI: 10.1371/journal.pone.0234529
Abstract: Morphometry characterization is an important procedure in describing neuronal cultures and identifying phenotypic differences. This task usually requires labor-intensive measurements and the classification of numerous neurites from large numbers of neurons in culture. To automate… read more here.
Keywords: plugin measurement; autoneuritej imagej; measurement classification; plugin ... See more keywords
CytoCluster: A Cytoscape Plugin for Cluster Analysis and Visualization of Biological Networks
Sign Up to like & getrecommendations! Published in 2017 at "International Journal of Molecular Sciences"
DOI: 10.3390/ijms18091880
Abstract: Nowadays, cluster analysis of biological networks has become one of the most important approaches to identifying functional modules as well as predicting protein complexes and network biomarkers. Furthermore, the visualization of clustering results is crucial… read more here.
Keywords: protein; ontology; cytoscape; analysis ... See more keywords