Bitplane | ImarisLineage for Cell and Developmental Biology

ImarisLineage For Cell and Developmental Biology


Determining the origins and relationships of cells is key when trying to understand biological processes in both healthy and pathological states. A wide range of disciplines, from developmental biology to cancer research, have benefited from novel microscopy modalities (e.g. light sheet and spinning disk microscopy), which enable long-term observations of fluorescently labeled living cells. These advancements in hardware enable routine experiments which result in long 3D time-lapse datasets, often 100s of gigabytes in size where one can observe cells dividing, differentiating or simply changing their shape and position. Imaris uses best-in-class memory management, which enables its users to visualize very large 3D plus time data sets. From Imaris 8.2 (December 2015) we also have a tool set which detects cell division and plots lineages.

Cell Lineage Tracking

Cell Lineage Tracking

The new lineage tracking algorithm automatically identifies dividing cells and calculates statistics specific to cell division, such as; generation, cell cycle duration, time since first division, time since previous division, normalized time since previous division, track number of generations, track number of branches.

Track editor with lineage tree plots

Track editor with lineage tree plots

The lineage tree represents the tracking results and can be easily edited and labeled. The lineage tree is fully interactive, enabling the user to select a cell, a track or a complete lineage. Selected items are highlighted in 3D space so that the user can easily identify the cells of interest within e.g. an embryo or spheroid.

Cell Lineage Tracking

Object labels determining fate and origin

Labels (colors and names) give users a direct way to identify objects or tracks of interest, i.e. all daughter cells that originated from any given mother cell, or spatial fate of cell “x” in the embryo (dorsal, ventral). Once structures have been labeledall other objects can be turned off/on to allow easier visualization of those labeled cells/tracks. All measured parameters can be calculated and explored separately for each labeled group.

Faster conversion into Imaris file format

The IMS file format offers the best performance and efficiency when loading and analysing large data sets. To make it easier to use this file format, we have vastly improved the speed of conversion of your multi-dimensional datasets into the Imaris file format (.ims). Using the new Imaris File Converter application, converting into .ims will take a fraction of the time it took before. This makes file opening, visualization and processing of large files more manageable.


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