- Keywords: image segmentation, light sheet microscopy, neurons, blood vessels
- TL;DR: This work reviews common issues with segmentation on tissue cleared light-sheet microscopy data on both human and animal samples through the example of previous publications.
- Abstract: Fluorescence light sheet microscopy (LSM) of tissue cleared samples enables holistic 3D imaging of the human brain and the full murine body. While this novel imaging method creates high resolution scans and has led to an abundance of high-profile publications in the last 5 years, analysing them is not trivial and comes with complex obstacles. In this paper we present a review and discussion of our groups previous works to present best practices on both animal and human scans and guidelines to overcome these obstacles
- Registration: I acknowledge that acceptance of this work at MIDL requires at least one of the authors to register and present the work during the conference.
- Authorship: I confirm that I am the author of this work and that it has not been submitted to another publication before.
- Paper Type: recently published or submitted journal contributions
- Primary Subject Area: Segmentation
- Secondary Subject Area: Application: Other
- Confidentiality And Author Instructions: I read the call for papers and author instructions. I acknowledge that exceeding the page limit and/or altering the latex template can result in desk rejection.