Polarity-JaM: an image analysis toolbox for cell polarity, junction and morphology quantification
Sábháilte in:
| Foilsithe in: | Nature Communications vol. 16, no. 1 (2025), p. 1474 |
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| Foilsithe / Cruthaithe: |
Nature Publishing Group
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| Ábhair: | |
| Rochtain ar líne: | Citation/Abstract Full Text - PDF |
| Clibeanna: |
Níl clibeanna ann, Bí ar an gcéad duine le clib a chur leis an taifead seo!
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MARC
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| 001 | 3164738679 | ||
| 003 | UK-CbPIL | ||
| 022 | |a 2041-1723 | ||
| 024 | 7 | |a 10.1038/s41467-025-56643-x |2 doi | |
| 035 | |a 3164738679 | ||
| 045 | 2 | |b d20250101 |b d20251231 | |
| 084 | |a 145839 |2 nlm | ||
| 245 | 1 | |a Polarity-JaM: an image analysis toolbox for cell polarity, junction and morphology quantification | |
| 260 | |b Nature Publishing Group |c 2025 | ||
| 513 | |a Journal Article | ||
| 520 | 3 | |a Cell polarity involves the asymmetric distribution of cellular components such as signalling molecules and organelles within a cell, alterations in cell morphology and cell-cell contacts. Advances in fluorescence microscopy and deep learning algorithms open up a wealth of unprecedented opportunities to characterise various aspects of cell polarity, but also create new challenges for comprehensible and interpretable image data analysis workflows to fully exploit these new opportunities. Here we present Polarity-JaM, an open source package for reproducible exploratory image analysis that provides versatile methods for single cell segmentation, feature extraction and statistical analysis. We demonstrate our analysis using fluorescence image data of endothelial cells and their collective behaviour, which has been shown to be essential for vascular development and disease. The general architecture of the software allows its application to other cell types and imaging modalities, as well as seamless integration into common image analysis workflows, see <ext-link xlink:href="https://polarityjam.readthedocs.io" ext-link-type="uri">https://polarityjam.readthedocs.io</ext-link>. We also provide a web application for circular statistics and data visualisation, available at <ext-link xlink:href="http://www.polarityjam.com" ext-link-type="uri">www.polarityjam.com</ext-link>, and a Napari plug-in, each with a graphical user interface to facilitate exploratory analysis. We propose a holistic image analysis workflow that is accessible to the end user in bench science, enabling comprehensive analysis of image data.Studying cell polarity is often limited by the complexity and variety of image data. Polarity-JaM is a software suite streamlining cell polarity analysis with easy-to-use tools and interfaces demonstrated for endothelial cell behaviour. | |
| 653 | |a Skewed distributions | ||
| 653 | |a Cell morphology | ||
| 653 | |a Software | ||
| 653 | |a Organelles | ||
| 653 | |a Scientific visualization | ||
| 653 | |a Applications programs | ||
| 653 | |a Morphology | ||
| 653 | |a Fluorescence microscopy | ||
| 653 | |a Workflow | ||
| 653 | |a Image processing | ||
| 653 | |a Graphical user interface | ||
| 653 | |a Statistical analysis | ||
| 653 | |a Machine learning | ||
| 653 | |a Exploratory behavior | ||
| 653 | |a Deep learning | ||
| 653 | |a Software packages | ||
| 653 | |a Polarity | ||
| 653 | |a Data analysis | ||
| 653 | |a Image analysis | ||
| 653 | |a Fluorescence | ||
| 653 | |a Image segmentation | ||
| 653 | |a Endothelial cells | ||
| 653 | |a Statistical methods | ||
| 653 | |a Algorithms | ||
| 653 | |a Economic | ||
| 773 | 0 | |t Nature Communications |g vol. 16, no. 1 (2025), p. 1474 | |
| 786 | 0 | |d ProQuest |t Health & Medical Collection | |
| 856 | 4 | 1 | |3 Citation/Abstract |u https://www.proquest.com/docview/3164738679/abstract/embedded/6A8EOT78XXH2IG52?source=fedsrch |
| 856 | 4 | 0 | |3 Full Text - PDF |u https://www.proquest.com/docview/3164738679/fulltextPDF/embedded/6A8EOT78XXH2IG52?source=fedsrch |