SilentMark

Company about

We use probabilistic algortihms to segment 3D microscopy images, which makes it possible to automatically process lower quality mammalian tissue and organoid samples, than required for alternative algorithms. Software also allows to manually define regions in space, which enable investigating geometric protein distribution within tissue and inter-protein relationships. Software is free to use and download after signing in.

Our purpose

Quantification

We are promoting quantitative analysis and better hypothesis testing in biology.

User Friendly

We are making image analysis more robust and accessible for non-specialists.

Flexible

We are constantly developing algorithms for new real world challenges.

Software is available upon contact, please read

the license and get in touch.

Examples

about
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Organoid analysis

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In vitro production of organ mimicking 3D tissues holds a promise for efficient drug screening strategies. Currently analysis is limited to brighfield microscopy. Here we explore how to automatically analize stem cell spheroids.

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Pre-implantation embryo analysis

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Even though the field of mouse pre-implantation biology is more than a century old, these developing tissues still reveal surprising details, in addition being a perfect playground for new image analysis algorithms.

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Post-implantation embryo analysis

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Post-implantation embryonic stages involve some of the most dramatic changes in tissue shape and biochemical composition. 3D analysis is crucial to understand how growing tissues self organise and generate complexity.

People behind the scenes

about

Karolis
Leonavicius

Software author

Antonio
Miranda

Microscopy consultant

Shankar
Srinivas

Group leader

Richard
Tyser

Microscopy consultant

Di
Hu

Microscopy consultant