Non-invasive in situ Visualization of the Murine Cranial Vasculature
Methods paper — iterative micro-CT workflow for whole-cranium vascular mapping
Read original publicationThis NeuroSimplicity-validated workflow maps murine cranial vasculature in situ without destroying the specimen. The Cell Reports Methods paper establishes the scientific basis for polymer casting and iterative micro-CT; layered volumes register in native sample space, with labels applied by aligning standard reference atlases (e.g., Allen CCFv3) or NeuroSimplicity atlases to the specimen.
Video walkthrough
See the iterative micro-CT workflow in action on our YouTube channel.
Multimodal Micro-CT & Neurovascular Workflow Walkthrough
End-to-end overview of the iterative micro-CT workflow and Imaging Suite registration pipeline.
Workflow overview
Sample prep
Prepare the specimen and cast cranial vessels with radiopaque polymer so vasculature is visible across every imaging stage.
- Retrograde aortic or transcardial perfusion and fixation per the original publication — retrograde aortic perfusion typically yields a more complete vascular cast.
- Infuse low-density polymer mixture to fill arterial and venous territories in situ.
- Verify complete vascular filling before the first micro-CT session.
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