High throughput image analysis platform for 3D cellular tissues

SilentMark is an image analysis platform for complex and hard to segment 3D cellular tissues. The software allows for the relative quantification of protein levels in the different sub-cellular compartments within 3D tissue structures of varying complexity. The tool has potential applications in the context of developmental biology, tissue engineering and drug discovery.

High throughput analysis of highly complex 3D cellular tissues from optical microscopy images

Automated protein distribution spatial analysis within cellular tissues becomes challenging when looking at highly complex 3D tissues, due to difficulties with segmentation of low resolution optical microscopy images that contain densely packed cellular features.

Using a robust probabilistic tissue segmentation method, the proprietary University of Oxford platform SilentMark, enables high throughput analysis of complex 3D cellular tissues from noisy and difficult to segment optical microscopy images. Protein fluorescence levels can be quantified in the different sub-cellular compartments, to facilitate the systematic analysis of protein localisation under a diverse range of experimental conditions.

Tested in the analysis of 3D tissues of varying complexity

The proprietary University of Oxford platform has a graphical user interface and has been tested in the context of developing tissues where initially low cellular density geometrically simple structures transform into high cellular density geometrically complex structures.The tissues on which the software has been tested include mouse stem cell embryoid bodies and mouse cardiomyocytes during heart development, tissues comprising from 2 to an estimated 2,000 cells respectively.

Applications in tissue engineering and drug screening

The platform is the first of a kind to provide quantitative three dimensional protein information for developing tissues across multiple organisms. This is particularly relevant where quantitative statistical analysis of protein organisation and gene expression lays the foundation for high throughput cancer research, tissue engineering, and drug screening.

Commercial or academic users wanting to license or make use of this proprietary University of Oxford software, please click below:

Commercial users –  https://process.innovation.ox.ac.uk/software/p/13299c/silentmark-commercial/1

Academic users – https://process.innovation.ox.ac.uk/software/p/13299a/silentmark-academic/1

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