scholarly journals A Three-dimensional MRI Atlas of the Mouse Brain with Estimates of the Average and Variability

2004 ◽  
Vol 15 (5) ◽  
pp. 639-645 ◽  
Author(s):  
N. Kovačević ◽  
J.T. Henderson ◽  
E. Chan ◽  
N. Lifshitz ◽  
J. Bishop ◽  
...  
Keyword(s):  
Mouse Brain ◽  
Three Dimensional

scholarly journals Comparative three-dimensional connectome map of motor cortical projections in the mouse brain

2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Minju Jeong ◽  
Yongsoo Kim ◽  
Jeongjin Kim ◽  
Daniel D. Ferrante ◽  
Partha P. Mitra ◽  
...  
Keyword(s):  
Mouse Brain ◽  
Three Dimensional ◽  
Cortical Projections ◽  
Motor Cortical

Three-dimensional inversion recovery manganese-enhanced MRI of mouse brain using super-resolution reconstruction to visualize nuclei involved in higher brain function

2014 ◽  
Vol 27 (7) ◽  
pp. 749-759 ◽  
Author(s):  
Dana S. Poole ◽  
Esben Plenge ◽  
Dirk H. J. Poot ◽  
Egbert A. J. F. Lakke ◽  
Wiro J. Niessen ◽  
...  
Keyword(s):  
Mouse Brain ◽  
Brain Function ◽  
Three Dimensional ◽  
Super Resolution ◽  
Inversion Recovery ◽  
Enhanced Mri ◽  
Manganese Enhanced Mri

scholarly journals Three-dimensional visualization of protein expression in mouse brain structures using imaging mass spectrometry

2005 ◽  
Vol 16 (7) ◽  
pp. 1093-1099 ◽  
Author(s):  
Anna C. Crecelius ◽  
D. Shannon Cornett ◽  
Richard M. Caprioli ◽  
Betsy Williams ◽  
Benoit M. Dawant ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Protein Expression ◽  
Mouse Brain ◽  
Imaging Mass Spectrometry ◽  
Three Dimensional ◽  
Brain Structures

scholarly journals Neuroanatomical phenotyping of the mouse brain with three-dimensional autofluorescence imaging

2012 ◽  
Vol 44 (15) ◽  
pp. 778-785 ◽  
Author(s):  
Jacqueline A. Gleave ◽  
Michael D. Wong ◽  
Jun Dazai ◽  
Maliha Altaf ◽  
R. Mark Henkelman ◽  
...  
Keyword(s):  
Optical Imaging ◽  
Mouse Brain ◽  
Imaging Techniques ◽  
Three Dimensional ◽  
Brain Structures ◽  
Small Scale ◽  
Specimen Preparation ◽  
Normal Brain ◽  
Autofluorescence Imaging ◽  
The Brain

The structural organization of the brain is important for normal brain function and is critical to understand in order to evaluate changes that occur during disease processes. Three-dimensional (3D) imaging of the mouse brain is necessary to appreciate the spatial context of structures within the brain. In addition, the small scale of many brain structures necessitates resolution at the ∼10 μm scale. 3D optical imaging techniques, such as optical projection tomography (OPT), have the ability to image intact large specimens (1 cm3) with ∼5 μm resolution. In this work we assessed the potential of autofluorescence optical imaging methods, and specifically OPT, for phenotyping the mouse brain. We found that both specimen size and fixation methods affected the quality of the OPT image. Based on these findings we developed a specimen preparation method to improve the images. Using this method we assessed the potential of optical imaging for phenotyping. Phenotypic differences between wild-type male and female mice were quantified using computer-automated methods. We found that optical imaging of the endogenous autofluorescence in the mouse brain allows for 3D characterization of neuroanatomy and detailed analysis of brain phenotypes. This will be a powerful tool for understanding mouse models of disease and development and is a technology that fits easily within the workflow of biology and neuroscience labs.

A three-dimensional digital atlas database of the adult C57BL/6J mouse brain by magnetic resonance microscopy

Neuroscience ◽  
2005 ◽  
Vol 135 (4) ◽  
pp. 1203-1215 ◽  
Author(s):  
Y. Ma ◽  
P.R. Hof ◽  
S.C. Grant ◽  
S.J. Blackband ◽  
R. Bennett ◽  
...  
Keyword(s):  
Magnetic Resonance ◽  
Mouse Brain ◽  
Three Dimensional ◽  
Magnetic Resonance Microscopy ◽  
Digital Atlas

scholarly journals Automatic navigation system for the mouse brain

2018 ◽  
Author(s):  
Susan J. Tappan ◽  
Brian S. Eastwood ◽  
Nathan O’Connor ◽  
Quanxin Wang ◽  
Lydia Ng ◽  
...  
Keyword(s):  
Mouse Brain ◽  
Digital Image ◽  
Navigation System ◽  
Three Dimensional ◽  
Brain Regions ◽  
Brain Atlas ◽  
Brain Section ◽  
Observer Error ◽  
Novel Technology ◽  
Experimental Mouse

Identification and delineation of brain regions in histologic mouse brain sections is especially pivotal for many neurogenomics, transcriptomics, proteomics and connectomics studies, yet this process is prone to observer error and bias. Here we present a novel brain navigation system, named NeuroInfo, whose general principle is similar to that of a global positioning system (GPS) in a car. NeuroInfo automatically navigates an investigator through the complex microscopic anatomy of histologic sections of mouse brains (thereafter: “experimental mouse brain sections”). This is achieved by automatically registering a digital image of an experimental mouse brain section with a three-dimensional (3D) digital mouse brain atlas that is essentially based on the third version of the Allen Mouse Brain Common Coordinate Framework (CCF v3), retrieving graphical region delineations and annotations from the 3D digital mouse brain atlas, and superimposing this information onto the digital image of the experimental mouse brain section on a computer screen. By doing so, NeuroInfo helps in solving the long-standing problem faced by researchers investigating experimental mouse brain sections under a light microscope—that of correctly identifying the distinct brain regions contained within the experimental mouse brain sections. Specifically, NeuroInfo provides an intuitive, readily-available computer microscopy tool to enhance researchers’ ability to correctly identify specific brain regions in experimental mouse brain sections. Extensive validation studies of NeuroInfo demonstrated that this novel technology performs remarkably well in accurately delineating regions that are large and/or located in the dorsal parts of mouse brains, independent on whether the sections were imaged with fluorescence or brightfield microscopy. This novel navigation system provides a highly efficient way for registering a digital image of an experimental mouse brain section with the 3D digital mouse brain atlas in a minute and accurate delineation of the image in real-time.

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