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Resource:Brain Architecture Management System

Name: Resource:Brain Architecture Management System
Description: Database and repository for information about neural circuitry, storing and analyzing data specifically concerned with nomenclature and its hierarchical taxonomy, with axonal connections between regions, and with the neuronal cell types that form regions and fiber pathways. This set of inference engines currently has 5 interrelated modules: Brain Parts (gray matter regions, major fiber tracts, and ventricles), Cell Types, Molecules, Connections (between regions and cell types), and Relations (between parts identified different neuroanatomical atlases).

BAMS is also an online knowledge management system designed to handle neurobiological information at different levels of organization of the vertebrate nervous system (NS). It handles data and metadata collated from original literature, or inserted by scientists that is associated to four levels of organization of the vertebrate NS: expressed molecules, neuron types and classes, brain regions, and networks of brain regions.

BAMS invites and encourages neuroscientists to help populate BAMS with connectivity and cell type data. This is the only way such an ambitious undertaking can move toward being comprehensive.

If you would like to set up an account in the system to insert data either in the public part of BAMS, or in the personal account, please contact the system administrator. If you are registered as a collator of BAMS, you can start inserting gene expression data in your Personal account. If you would like to use the newly implemented Personal Workspace, to receive updates about new features and tools added to BAMS, or to know when new data is inserted please go to the Registration page. You can use the Personal Workspace to save your searches of brain regions, neuroanatomical connections, and molecules.

Registering in the Personal Workspace also allows associating your personal annotations with reports of brain regions, neuroanatomical connections, and molecules. BAMS contains neuroanatomical nomenclatures for the rat, human, macaque, cat, and mouse (more than 8000 names). The system contains to date on the order of 40,000 reports of connections between different brain structures in the rat, as collated from the literature.
Other Name(s): The Brain Architecture Management System
Abbreviation: BAMS
Parent Organization: University of Southern California; California; USA
Supporting Agency: NIMH, NINDS, NIBIB, Resource:Human Brain Project
Grant: MH61223, NS16686, NS50792-01
Resource Type(s): Database, Ontology, Data repository
Resource: Resource
URL: http://brancusi.usc.edu/bkms/
*Id: nif-0000-00018
Related to: Resource:NIF Data Federation
Keywords: molecular neuroanatomy resource, gene expression, radioactive tracer, immunohistochemistry, neural circuitry, nomenclature, taxonomy, connectivity, pathway, Brain, neuroanatomy, brain region, Connection, Cell type, Molecule
Organism: macaque, cat, Human, Mouse, Rat
Link to OWL / RDF: Download this content as OWL/RDF

Categories related to Resource:Brain Architecture Management System

Resource:Integrated Manually Extracted Annotation, Resource:Integrated Nervous System Connectivity

Parts of Resource:Brain Architecture Management System

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Notes

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Contributors

Aarnaud, Ccdbuser, Memartone, Yazin



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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:Brain Architecture Management SystemRDF feed
AbbrevBAMS  +
CurationStatusuncurated  +
DefiningCitationhttp://brancusi.usc.edu/bkms/  +
DefinitionDatabase and repository for information ab Database and repository for information about neural circuitry, storing and analyzing data specifically concerned with nomenclature and its hierarchical taxonomy, with axonal connections between regions, and with the neuronal cell types that form regions and fiber pathways. This set of inference engines currently has 5 interrelated modules: Brain Parts (gray matter regions, major fiber tracts, and ventricles), Cell Types, Molecules, Connections (between regions and cell types), and Relations (between parts identified different neuroanatomical atlases).

BAMS is also an online knowledge management system designed to handle neurobiological information at different levels of organization of the vertebrate nervous system (NS). It handles data and metadata collated from original literature, or inserted by scientists that is associated to four levels of organization of the vertebrate NS: expressed molecules, neuron types and classes, brain regions, and networks of brain regions.

BAMS invites and encourages neuroscientists to help populate BAMS with connectivity and cell type data. This is the only way such an ambitious undertaking can move toward being comprehensive.

If you would like to set up an account in the system to insert data either in the public part of BAMS, or in the personal account, please contact the system administrator. If you are registered as a collator of BAMS, you can start inserting gene expression data in your Personal account. If you would like to use the newly implemented Personal Workspace, to receive updates about new features and tools added to BAMS, or to know when new data is inserted please go to the Registration page. You can use the Personal Workspace to save your searches of brain regions, neuroanatomical connections, and molecules.

Registering in the Personal Workspace also allows associating your personal annotations with reports of brain regions, neuroanatomical connections, and molecules. BAMS contains neuroanatomical nomenclatures for the rat, human, macaque, cat, and mouse (more than 8000 names). The system contains to date on the order of 40,000 reports of connections between different brain structures in the rat, as collated from the literature.
at, as collated from the literature.
ExampleImageBAMS.PNG  +
GrantCategory:MH61223   +, Category:NS16686   +, and Category:NS50792-01   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +, Ontology  +, and Data repository  +
Idnif-0000-00018  +
Is part ofUniversity of Southern California; California; USA  +
KeywordsMolecular neuroanatomy resource  +, Gene expression  +, Radioactive tracer  +, Immunohistochemistry  +, Neural circuitry  +, Nomenclature  +, Taxonomy  +, Connectivity  +, Pathway  +, Brain  +, Neuroanatomy  +, Brain region  +, Connection  +, Cell type  +, and Molecule  +
LabelResource:Brain Architecture Management System  +
ModifiedDate27 April 2014  +
Page has default formThis property is a special property in this wiki.Resource  +
RelatedToResource:NIF Data Federation  +
SpeciesMacaque  +, Cat  +, Human  +, Mouse  +, and Rat  +
SuperCategoryResource  +
Supporting AgencyNIMH  +, NINDS  +, NIBIB  +, and Resource:Human Brain Project  +
SynonymThe Brain Architecture Management System  +