Deep Brain Imaging
Deep Brain Imaging - Related Videos
03:22
Deep-Tissue Imaging of a Zebrafish Brain Using a Three-Photon Fluorescence Microscope
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2025
Source: Hontani, Y., et al. Deep-Tissue Three-Photon Fluorescence Microscopy in Intact Mouse and Zebrafish Brain. J. Vis. Exp. (2022)This video demonstrates the setup and execution of three-photon imaging in an anesthetized zebrafish brain. The protocol enables deep-tissue visualization of fluorescently labeled neurons, revealing real-time neuronal activity and structures for neuroscience research applications.
11:09
Deep Brain Stimulation with Simultaneous fMRI in Rodents
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Cited by 21 •
2014
This protocol describes a standard method for simultaneous functional magnetic resonance imaging and deep brain stimulation in the rodent. The combined use of these experimental tools allows for the exploration of global downstream activity in response to electrical stimulation at virtually any brain target.
05:44
Using Saccadometry with Deep Brain Stimulation to Study Normal and Pathological Brain Function
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Cited by 7 •
2016
This paper describes the use of quantitative measurement of eye movements in conjunction with stimulation of focal areas of the deep brain in order to study physiology, pathophysiology, and the mechanisms of deep brain stimulation.
09:45
In vivo Imaging of Deep Cortical Layers using a Microprism
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Cited by 11 •
2009
Right-angle microprisms inserted into the mouse neocortex allows for deep imaging of multiple cortical layers with a viewpoint typically found in slice. One-millimeter microprisms offer a wide field-of-view (~900 μm) and spatial resolutions sufficient to resolve dendritic spines. We demonstrate layer V neuronal imaging and neocortical vascular imaging using microprisms.
12:00
Non-invasive Parenchymal, Vascular and Metabolic High-frequency Ultrasound and Photoacoustic Rat Deep Brain Imaging
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Cited by 9 •
2015
The present work describes a new protocol to perform non-invasive high-frequency ultrasound and photoacoustic based imaging on rat brain, to efficiently visualize deep subcortical regions and their vascular patterns by directing signals on skull foramina naturally present on animal cranium.
FAQs
The signal source determines what the imaging method can reveal. Magnetic resonance imaging measures responses produced through magnetic fields and radiofrequency signals, whereas optical approaches detect light from fluorescent indicators. This distinction links each technique to different levels of analysis, allowing researchers to examine either broad anatomical organization or activity associated with specific neural elements.
Fluorescent indicators provide an introduced signal that optical systems can detect with light. Their use enables researchers to associate observed fluorescence with neural activity or cellular processes in regions that cannot be examined directly from the surface. Consequently, optical imaging can contribute cellular-level information that complements broader measurements of brain anatomy and connectivity.
Combining these measurements connects where neural structures are located with how they function. Anatomical information helps organize observations within whole-brain pathways, while activity-related signals show neural dynamics within those pathways. This integration is important in neuroscience because it supports circuit-level interpretations rather than treating structure, activity, and behavior as separate observations.
Researchers select an approach according to the signal they need to detect and the scale of information required. Magnetic resonance imaging uses magnetic fields and radiofrequency signals to examine brain structures, while optical methods pair fluorescent indicators with light detection. The choice therefore depends on whether the study emphasizes whole-brain anatomy, neural activity, or their relationship.
A study first identifies the neural question, such as connectivity, activity, development, or disease-related change. Researchers then select an imaging approach that can detect the relevant tissue-generated or introduced signal, collect measurements from deep regions, and relate those observations to brain anatomy. Interpreting the results in this sequence helps connect imaging findings with circuit function and behavior.
The approach can support studies of how neural circuits connect, how their activity changes over time, and how these patterns develop or differ during disease-related processes. Its value extends beyond structural mapping because researchers can compare neural dynamics with whole-brain anatomy. These comparisons help explain how circuit organization contributes to behavior and changing brain function.
By linking cellular activity with larger-scale anatomy, imaging findings can reveal patterns associated with circuit function or disease-related change. Those patterns may help researchers evaluate potential diagnostic tools and identify targets for more focused therapeutic development. The methods therefore provide a bridge between observing neural mechanisms and applying that knowledge to clinically relevant neuroscience questions.