Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Organization of the Brain

Organization of the Brain

The brain is an integral component of the nervous system and serves as the center for processing sensory inputs, making decisions, and directing bodily actions. This complex organ is organized into three primary sections: the hindbrain, midbrain, and forebrain, each responsible for a range of vital functions.
Hindbrain
The hindbrain, located at the base of the brain, plays a vital role in regulating automatic processes that sustain life. It includes the medulla oblongata, which is essential for...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Multimodal characterization of variation in neuronal types in the mouse basal ganglia.

bioRxiv : the preprint server for biology·2026

Same author

Short T1 Fraction as a Marker of Myelin Content: Evidence from Postmortem MRI and Histology.

bioRxiv : the preprint server for biology·2026

Same author

Adaptive Riemannian optimization for multi-scale diffeomorphic matching.

Nature communications·2026

Same author

Clinicoanatomic localization of iron-rich gliosis in aphasic presentations of globular glial tauopathy.

Brain communications·2026

Same author

Quantitative MRI analysis of deep gray matter aging: Volumetric, T1/T2 ratio, and blood perfusion alterations.

Neuroimage. Reports·2026

Same author

FiberLM: A Transformer-Based Model for Mouse Brain Diffusion MRI Tractography Guided by Viral Tracer Data.

bioRxiv : the preprint server for biology·2026

Search research articles

Related Experiment Video

Updated: Jul 5, 2026

Microdissection of Mouse Brain into Functionally and Anatomically Different Regions

Microdissection of Mouse Brain into Functionally and Anatomically Different Regions

Published on: February 15, 2021

Developmental Mouse Brain Common Coordinate Framework.

Fae A Kronman¹, Josephine K Liwang¹, Rebecca Betty¹

¹Department of Neural and Behavioral Sciences, College of Medicine, The Pennsylvania State University, Hershey, PA.

Biorxiv : the Preprint Server for Biology

|September 25, 2023

Summary

A new 3D developmental common coordinate framework (DevCCF) provides standard reference brains for mouse development. This resource enables large-scale data integration for a comprehensive understanding of brain development.

Keywords:

GABA neurons anatomical segmentation brain development common coordinate framework (CCF)multimodal registration reference atlas

More Related Videos

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Published on: August 1, 2022

Author Spotlight: Exploring Cell Migration and Gene Roles in the Developing Brain

Author Spotlight: Exploring Cell Migration and Gene Roles in the Developing Brain

Published on: March 8, 2024

Related Experiment Videos

Last Updated: Jul 5, 2026

Microdissection of Mouse Brain into Functionally and Anatomically Different Regions

Microdissection of Mouse Brain into Functionally and Anatomically Different Regions

Published on: February 15, 2021

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Whole-Brain Single-Cell Imaging and Analysis of Intact Neonatal Mouse Brains Using MRI, Tissue Clearing, and Light-Sheet Microscopy

Published on: August 1, 2022

Author Spotlight: Exploring Cell Migration and Gene Roles in the Developing Brain

Author Spotlight: Exploring Cell Migration and Gene Roles in the Developing Brain

Published on: March 8, 2024

Area of Science:

Neuroscience
Developmental Biology
Bioinformatics

Background:

Standard 3D reference brains are crucial for brain research and data interoperability.
A lack of standardized 3D atlases for developing mouse brains has limited progress in understanding brain development.

Approach:

Developed a multimodal 3D developmental common coordinate framework (DevCCF) covering key embryonic and postnatal stages (E11.5-P56).
Created undistorted, morphologically averaged atlas templates using MRI and light sheet fluorescence microscopy.
Incorporated expert-curated 3D anatomical segmentations based on an updated prosomeric model and a developmental ontology.

Key Points:

The DevCCF includes co-registered high-resolution templates and an interactive 3D web-visualizer.
Used DevCCF to study the emergence of GABAergic neurons in embryonic brains.
Integrated Allen CCFv3 and mapped spatial transcriptome data to the P56 template.

Conclusions:

The DevCCF is an openly accessible resource for integrating diverse developmental neuroscience datasets.
Facilitates a comprehensive understanding of mouse brain development through standardized spatial referencing.
Enables advanced research in developmental neurobiology and comparative studies.