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Related Experiment Video

Updated: Sep 25, 2025

Whole-Brain 3D Activation and Functional Connectivity Mapping in Mice using Transcranial Functional Ultrasound Imaging
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CUBIC-Cloud provides an integrative computational framework toward community-driven whole-mouse-brain mapping.

Tomoyuki Mano1,2, Ken Murata3, Kazuhiro Kon4

  • 1Department of Information Physics and Computing, Graduate School of Information Science and Technology, The University of Tokyo, Bunkyo-ku, Tokyo 113-0033, Japan.

Cell Reports Methods
|April 27, 2022
PubMed
Summary

Researchers can now analyze whole mouse brains at cellular resolution using CUBIC-Cloud, a new cloud-based tool. This automated system helps quantify, visualize, and integrate complex brain mapping data for collaborative research.

Keywords:
Alzheimer's diseaseKiss1LPSarcuate nucleus of the hypothalamusc-Foscloud computinginflammationlight-sheet fluorescence microscopyrabies virustissue clearing

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Area of Science:

  • Neuroscience
  • Bioinformatics
  • Computational Biology

Background:

  • Tissue clearing technologies enable whole mouse brain analysis at cellular resolution.
  • Scalable computational tools are needed for analyzing large-scale brain mapping datasets.

Purpose of the Study:

  • To present CUBIC-Cloud, a cloud-based framework for quantifying, visualizing, and integrating whole mouse brain data.
  • To provide a fully automated system for data analysis and publication.

Main Methods:

  • Development of a cloud-based computational framework (CUBIC-Cloud).
  • Demonstration of applications including cell type distribution, Aβ plaque quantification, neuronal activity profiling (c-Fos), and brain-wide connectivity mapping.

Main Results:

  • CUBIC-Cloud successfully processed and analyzed diverse whole-brain datasets.
  • The framework facilitated investigation of cell distributions, disease pathology (Alzheimer's), inflammation responses, and neural connectivity.

Conclusions:

  • CUBIC-Cloud offers an integrative and scalable platform for whole-brain mapping.
  • The tool supports collaborative research by enabling easy data analysis and integration.