zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Illustration (click to hide): zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Project Description

In this project we have developed an open-source implementation of an OPT platform, built around a customized sample stage, 3D-printed parts and open source algorithms optimized for the system. We have developed a versatile automated workflow including a two-step image processing approach for correcting the center of rotation and generating accurate 3D reconstructions. The system is optimized for imaging of young zebrafish, and rapid loading and unloading of samples enables analysis of a large number of fish. The system has been used in several projects at the zebrafish facility, Genome Engineering Zebrafish, SciLifeLab.


Tags: Microscopy, zebrafish

Project Information

  • BIIF Principal Investigators

    • Amin Allalou
    • Hanqing Zhang

    External Authors

    Johan Ledin, Laura Waldmann, Tatjana Haitina, Beata Filipek Gorniok, Tiffany Klingström, Department of Organismal Biology, Uppsala University and Genome Engineering Zebrafish, SciLifeLab.

  • Date

    2019-01-01 🠚 Current