Research Service | Whole-Brain Clearing Imaging & Analysis Service

Time：2025-08-06 17:04:07

Service Overview

Using efficient sample clearing and imaging techniques, we analyze the complete neural network of the mouse brain. Our process achieves high transparency of the whole-brain tissue while preserving fluorescent protein signals, enabling rapid, uniform, subcellular-resolution imaging of the entire mouse brain. This supports high-precision 3D reconstruction of neural networks. Compatible with multiple techniques such as immunolabeling, viral tracing, and transgenic labeling, this service precisely reveals the distribution features of brain neural networks as well as their interactions with other brain tissues, providing strong support for whole-brain connectomics research.

Service Workflow

1.Sample Preparation

Includes fixation & embedding, sectioning & mounting, and tissue clearing to ensure morphological stability and optimized light transmittance.

Figure 1: Sample preparation workflow diagram

2. 3D Imaging

Whole-brain 3D imaging is performed using VISoR high-resolution microscopy, with resolutions up to 0.5 × 0.5 × 2 μm³, ensuring accurate capture of neuronal structures and connections.

Figure 2: Stitching process schematic

3. Data Processing & Analysis

Includes whole-brain cell detection, image stitching & reconstruction, and registration to the Allen CCFv3 atlas, enabling precise 3D reconstruction and analysis of brain structures.

4. Deliverables

2D Imaging: Maximum intensity projection images of individual slices for quick sample quality review and preliminary assessment.
3D Reconstruction: 4 μm / 1 μm / 0.5 μm resolution data upon request, visualizing the 3D structures of tissues, cells, and neural networks.
Final Project Report: Professional report including data charts and analysis conclusions, based on cell identification and brain-region cell count results.

Service Turnaround Time

From sample receipt to final results delivery, the overall turnaround is approximately 10–15 working days (subject to adjustment based on experiment complexity).
Sample fixation & embedding: 1–2 days
Sectioning & tissue clearing: 2 days
Mounting: 1–2 days
Refractive index matching & imaging: 2 days
3D reconstruction & data analysis: 3–10 days

Service Highlights

High-Transparency Sample Preparation: Incorporates innovative clearing techniques to ensure maximum optical clarity.
Antibody Labeling Support: Compatible with various antibodies, including tyrosine hydroxylase (TH) and c-Fos antibodies.
High-Throughput Imaging: Enables rapid, high-throughput data acquisition and visualization — complete mouse whole-brain imaging in under 2 hours; supports processing and imaging of large or whole-body samples.

Case Studies

Case 1: Localization of Brain Regions Related to Cooperative Behavior in Mice

Using c-Fos immunostaining combined with VISoR whole-brain imaging, we precisely detected high c-Fos expression in the frontal pole (FRP), motor cortex (MO), and anterior cingulate cortex (ACA), indicating these regions are active during cooperative behavior. This provides key evidence for the involvement of functions such as decision-making and social interaction in cooperative tasks.

Guo-Qiang Bi，Molecular Brain，2023

Case 2: Projection Study of Neurons Targeting the Pedunculopontine Nucleus (PPN)

By applying dual-virus labeling and VISoR imaging, we clearly traced individual neuronal axons projecting from cortical regions such as the ACA and prelimbic area (PL) to the PPN, revealing distinctive collateral branching patterns. These findings offer a new perspective for understanding the neural circuit mechanisms by which the PPN participates in motor control, sleep, and related functions.

Guo-Qiang Bi，Mol Brain，2022

For more information on related products and services, please contact bd@ebraincase.com

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WhatsApp Business Account

Tel： +8618971215294

E-mail： BD@ebraincase.com

Research Service | Whole-Brain Clearing Imaging & Analysis Service