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 publication 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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