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Resource:Mouse Brain Architecture Project

Name: Resource:Mouse Brain Architecture Project
Description: Brainwide maps of inter-regional neural connectivity specifying the inputs and outputs of every mouse brain region at a “mesoscopic” level of analysis corresponding to brain compartments defined in classical neuroanatomy.

To determine the outputs of a brain region (i.e., the other regions it projects to), anterograde tracers are used which are taken up by neurons locally (“the input”), then transported actively down the axons to the “output regions”. The whole brain is then sliced thinly, and each slice is digitally imaged. These 2-D images are reconstructed in 3D. The majority of the resulting 3-D brain image is unlabeled— only the injected region and its output regions have tracer in them, allowing for identification of this small fraction of the connectivity map. This procedure is repeated identically, to account for individual variability.

To determine the inputs to the same brain region as above, a retrograde tracer is injected in the same stereotaxic location (“the input”), and the process is repeated. In order to accumulate data from different mice (each of whom has a slightly different brain shape and size), 3-D spatial normalization is performed using registration algorithms.

These gigapixel images of whole-brain sections can be zoomed to show individual neurons and their processes, providing a “virtual microscope.” The images are integrated with other data sources from the web, and are fully accessible to the neuroscience community as well as interested members of the general public. Each sampled brain is represented in about 500 images, each image showing an optical section through a 20 micron-thick slice of brain tissue. A multi-resolution viewer permits users to journey through each brain, following the pathways taken through three-dimensional brain space by tracer-labeled neuronal pathways. A key point is that at the mid-range “mesoscopic” scale, the team expects to assemble a picture of connections that are stereotypical and probably genetically determined in a species-specific manner. By dividing the volume of a hemisphere of the mouse brain into 250 equidistant, predefined grid-points, and administering four different kinds of tracer injections at each grid point -- in different animals of the same sex and age a complete wiring diagram that will be stitched together in “shotgun” fashion from the full dataset.
Other Name(s): Mouse Brain Architecture
Abbreviation: MBA, MBA Project
Parent Organization: Resource:Brain Architecture Project
Supporting Agency: National Institutes of Health, NIH Office of the Director
Grant: RC1MH088659, R01MH087988
Resource Type(s): 3D spatial image, Reference atlas
Resource: Resource
URL: http://brainarchitecture.org/mouse/about
*Id: nlx_146201
Availability: Fully accessible to the neuroscience community as well as interested members of the general public.
Keywords: Brain, Connectivity, Neuroanatomy
Organism: Mouse
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Uncurated

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Notes

This page uses this default form:Resource

Old URL: http://mouse.brainarchitecture.org

Contributors

Aarnaud, Ccdbuser, Zaidaziz



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*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.

Facts about Resource:Mouse Brain Architecture ProjectRDF feed
AbbrevMBA, MBA Project  +
AvailabilityFully accessible to the neuroscience community as well as interested members of the general public.  +
CurationStatuscurated  +
DefiningCitationhttp://brainarchitecture.org/mouse/about  +
DefinitionBrainwide maps of inter-regional neural co Brainwide maps of inter-regional neural connectivity specifying the inputs and outputs of every mouse brain region at a â??mesoscopicâ?? level of analysis corresponding to brain compartments defined in classical neuroanatomy.

To determine the outputs of a brain region (i.e., the other regions it projects to), anterograde tracers are used which are taken up by neurons locally (â??the inputâ??), then transported actively down the axons to the â??output regionsâ??. The whole brain is then sliced thinly, and each slice is digitally imaged. These 2-D images are reconstructed in 3D. The majority of the resulting 3-D brain image is unlabeledâ?? only the injected region and its output regions have tracer in them, allowing for identification of this small fraction of the connectivity map. This procedure is repeated identically, to account for individual variability. To determine the inputs to the same brain region as above, a retrograde tracer is injected in the same stereotaxic location (â??the inputâ??), and the process is repeated. In order to accumulate data from different mice (each of whom has a slightly different brain shape and size), 3-D spatial normalization is performed using registration algorithms.

These gigapixel images of whole-brain sections can be zoomed to show individual neurons and their processes, providing a â??virtual microscope.â?? The images are integrated with other data sources from the web, and are fully accessible to the neuroscience community as well as interested members of the general public. Each sampled brain is represented in about 500 images, each image showing an optical section through a 20 micron-thick slice of brain tissue. A multi-resolution viewer permits users to journey through each brain, following the pathways taken through three-dimensional brain space by tracer-labeled neuronal pathways. A key point is that at the mid-range â??mesoscopicâ?? scale, the team expects to assemble a picture of connections that are stereotypical and probably genetically determined in a species-specific manner. By dividing the volume of a hemisphere of the mouse brain into 250 equidistant, predefined grid-points, and administering four different kinds of tracer injections at each grid point -- in different animals of the same sex and age a complete wiring diagram that will be stitched together in â??shotgunâ?? fashion from the full dataset.
shotgunâ?? fashion from the full dataset.
ExampleImageMBA.PNG  +
GrantCategory:RC1MH088659   +, and Category:R01MH087988   +
Has default formThis property is a special property in this wiki.Resource  +
Has role3D spatial image  +, and Reference atlas  +
Idnlx_146201  +
Is part ofResource:Brain Architecture Project  +
KeywordsBrain  +, Connectivity  +, and Neuroanatomy  +
LabelResource:Mouse Brain Architecture Project  +
ModifiedDate25 July 2014  +
OldURLhttp://mouse.brainarchitecture.org  +
Page has default formThis property is a special property in this wiki.Resource  +
SpeciesMouse  +
SuperCategoryResource  +
Supporting AgencyOffice of the Director  +, and National Institutes of Health  +
SynonymMouse Brain Architecture  +