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Peer-reviewed research

Publications

The Imaging Suite has been used in peer-reviewed neuroscience research, including landmark neuroanatomy and neuroimmunology studies in collaboration with NIH researchers. Publications are grouped by type — discoveries, methods, and protocols — with links to the original journal pages.

Institutional recognition

NeuroSimplicity has been designated sole-source by the National Institutes of Health for automated neuroscience data analysis capabilities required in mission-critical experiments — reflecting capabilities with no viable alternative for unified multi-modal imaging and analytics.

4 publications

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Landmark discoveries

Primary research enabled by Imaging Suite workflows, published in leading journals.

Nature, Feb 2026·Monaghan KL, Zanluqui NG, et al.

Highly dynamic dural sinuses support meningeal immunity

DOI: 10.1038/s41586-026-10165-8PubMed

Latest Nature publication from NIH NINDS collaborators, establishing dural sinuses as dynamic regulators of meningeal immunity.

NIH NINDS investigators used intravital microscopy and multi-modal cranial mapping to show that dural sinuses are highly dynamic venous structures, not passive blood drains, that restructure to regulate blood flow, fluid movement, and immune surveillance at the neuroimmune interface.

Key findings

  • Dural sinuses undergo RAMP1-dependent constriction and dilation mediated by smooth muscle, resembling arterial behaviour.
  • The superior sagittal sinus in mice is bifurcated into upper and lower chambers that contribute to intracranial pressure regulation.
  • Specialized fenestrated sinus endothelial cells dynamically regulate intercellular boundaries (RAMP2-dependent) to safeguard fluid exchange and immune cell trafficking during homeostasis and viral infection.

Imaging Suite role: The Imaging Suite mapped cranial vasculature and integrated multi-modal 3D data, supporting analysis of dural sinus architecture and its role in fluid exchange, immune surveillance, and antiviral defence.

Nature, Mar 2024·Fitzpatrick Z, Zanluqui NG, Rosenblum JS, et al.

Venous-plexus-associated lymphoid hubs support meningeal humoral immunity

DOI: 10.1038/s41586-024-07202-9PubMed

Landmark neuroimmunology discovery published in Nature by NIH NINDS investigators, using the Imaging Suite and its in situ micro-CT workflow.

NIH researchers identified dural-associated lymphoid tissues (DALT) associated with fenestrated veins in the dura mater, including the rostral-rhinal venolymphatic hub linking lymphatic vessels and skull bone marrow. Iterative micro-CT of vascular-cast mouse heads produced in situ 3D maps of this hub and its relationships to venous sinuses, diploic veins, and lymphatics.

Key findings

  • Discovery of DALT and the rostral-rhinal venolymphatic hub, providing immune surveillance for the brain via venous-plexus connections linking lymphatics and skull marrow.
  • DALT hosts germinal center B cells in steady state for somatic mutation and antibody production.
  • Nasal pathogens trigger DALT expansion, class-switched plasma cells, and local B cell activation through antigen deposition.

Imaging Suite role: The Imaging Suite combined separate micro-CT scans into 3D maps of the immune hub and its vascular connections, revealing postnatal maturation and structural links supporting antigen capture and immune activation.

Methods

Peer-reviewed methods papers establishing the foundational imaging and analysis workflows.

Cell Reports Methods, Jun 2021·Rosenblum JS, Cappadona AJ, et al.

Non-invasive in situ Visualization of the Murine Cranial Vasculature

DOI: 10.1016/j.crmeth.2021.100151PubMedInteractive protocol

Foundational methods paper establishing the iterative micro-CT workflow for whole-cranium vascular mapping.

A non-invasive workflow for visualizing the entire murine cranial vasculature in situ via polymer casting, iterative sample processing, and micro-computed tomography. Staged imaging isolates anatomical components without destruction, enabling quantitative assessments in normal and altered states.

Key findings

  • Non-invasive visualization of in situ cranial vasculature and surrounding anatomy.
  • Non-destructive iterative sample processing allows repeated image acquisition from the same specimen.
  • Automated image processing, feature extraction, and visualization aligned to brain atlases.

Imaging Suite role: The Imaging Suite automated deformable registration across iterative micro-CT scans, feature extraction, Allen Brain Atlas alignment, and 3D quantification without destroying the sample.

Protocols

Step-by-step protocols suitable for adoption across labs, with interactive guides on this site.

STAR Protocols, Sep 2023·Dang DD, Chandrashekhar V, et al.

Visualization of murine in situ neurovascular interfaces

DOI: 10.1016/j.xpro.2023.102367PubMedInteractive protocol

Peer-reviewed step-by-step protocol for in situ cranial neurovascular interface imaging, the only published workflow of its kind.

A step-by-step protocol for non-destructive visualization of in situ murine cranial vasculature and neurovascular interfaces using polymer casting, iterative sample processing, and micro-CT. The workflow supports repeated scans to map vessels alongside bone and soft tissues without sample destruction.

Key findings

  • Non-invasive visualization of in situ cranial vasculature and surrounding anatomy.
  • Iterative decalcification and re-scanning to isolate soft tissues and vessels non-destructively.
  • Automated registration, feature extraction, atlas alignment, and 3D mapping for neurovascular quantification.

Imaging Suite role: The Imaging Suite micro-CT module automates registration across iterative scans, feature extraction, and atlas alignment for precise 3D reconstructions.

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Publications | NeuroSimplicity