04 Jul Microscopy and Image Processing: picking up the right tools to ensure the imaging continuum

With advanced microscopies come advanced image processing. Let’s consider ultramicroscopy with which you can image a full organ such as the brain. You may be able to sport individual cells but how would you do it automatically ? The next challenge would then be to locate, precisely, each individual detection and fit them onto standardized representations such as atlases. Well, some tools exist and we have been getting our hands on them. If this teaser met its aim, you should definitely come and talk to Jeremie on the Facility.

Additional user-taylored workflows have been designed. In a world of high-throughput imaging, the overwhelmed users have sunken under tons of images, made from 96-well plates… How to extract meaningful information, while relating them to specific treatment conditions ? Well, you all know about our Zeiss CD7 HCS system, but did you know that we also generate automated workflows to extract and review the data ? Everything is done with two multi-platform freewares, CellProfiler and CellProfiler analyst. We have also started  to do “intelligent acquisitions” where low resolution images are acquired, then analyzed, in search of events of interest that are acquired at high resolution. Interested ? Please talk about your project with Fabrice.

And you can still contact Sébastien for everything dealing with 3D visualization/analysis with Imaris, and Magali for any problematics related to super-resolution analysis !

Mapping mouse brain activity in 3D on Allen brain atlas, based on IDISCO CFOS staining. Team Lisa Roux – IINS.