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Name of Collaboratory :


Biomedical Informatics Research Network: Mouse (MBIRN)


Logo :


URL :  

Collaboratory Status :

Completed   Start Date : 2000 End Date : 2003 Info Last Updated : Fri, Dec 3 2010 3:00am PST

Primary Collaboratory Function :

  Community Data Systems  

Secondary Collaboratory Functions :


Domain(s) :

  Neurosciences--> Brain imaging--> Diseases of the brain and the treatment thereof.


Brief Description of the Collaboratory :


Mouse Birn aims to provide a test bed for the formulation of hardware, software and protocols to effectively share and mine multi-scale structural and functional data and to integrate these with genomic and gene expression data on the mouse brain. It will create a multiscale federated imaging database for transgenic mouse models and it will link models of human disease to human imaging data, because animal models provide opportunities for studies not possible in human.It also aims to investigate how alterations detectable at one scale is manifested at others
This network will enhance the productivity of two ongoing collaborative studies in basic mouse models of neurological and psychiatric disorders:
The dopamine transporter (DAT) knockout mouse, (we call it the dot com), with marked alterations in the dopaminiergic system. This mouse is ideal for studies in schizophrenia, attention-deficit hyperactivity order (ADHD), and substance abuse.
The experimental allergic encephalomyelitis (EAE) mouse models (both chemically induced and transgenic) which undergo episodic weakness and demyeliniation characteristic of multiple scelrosis.


Access to Instruments :


Access to Information Resources :

  All sites are depositing data into SRB. Racks are installed and functioning at each site.A set of sample queries was developed using input from each site.
Each site of Mouse BIRN delivers different dataset to BIRN CC. For example, Duke delivered an MRM image dataset to the BIRN-CC; CalTech delivered an Diffusion Tensor MRI image dataset to the BIRN CC; NCMIR delivered an EMT image dataset to the BIRN-CC.

Access to People as Resources :

  Mouse BIRN's relation with other sites:
Mouse BIRN reports the milestones to BIRN CC. They also report resources need and resources allocation to BIRN CC.
Data collection:
The database developers need to get the final document containing a list of sample queries and general scientific questions that researchers might want to execute across the federated databases.To get this, a survey was administrated to gather information from different sites related to the elements that need to be in the Mouse BIRN.

Funding Agency or Sponsor :

United States Department of Health and Human Services
National Institutes of Health (NIH)
National Center for Research Resources (NCRR)

Notes on Funding Agencies/Sponsors:


Notes on Participants/Organizations:
44 people are listed in the contacts list


Communications Technology Used :

  Public and Secure Webste & Video Conferencing via a MCU unit. Face-to-face meetings, email and phone.  

Technical Capabilities :

  Management of technical resources
Security, Access control/login facilities
Data mining
Asynchronous object sharing
Index/metadata, Centrally controlled knowledge base, Email/attachments
Asynchronous conversation
Synchronous object sharing
Share visualization, Data conferencing
Synchronous conversation
Audio, Video, Instant messaging/chat
  Key Articles :  

Ackerman, S. P. (2003). BIRN: Putting heads together in cyberspace NCRR Reporter, 27(4), 5-7.

Buetow, K. H. (2005). Cyberinfrastructure: Empowering a "third way" in biomedical research Science, 308(5723), 821-824.

Foster, I. (2005). Service-oriented science Science, 308(5723), 814-817.

Marx, V. (2002). Beautiful bioimages for the eyes of many beholders Science, 297, 39-40.


Project-reported performance data :

  Latest statistics on SRB File Growth and Account Growth, Storage Breakdown by site and institution can be viewed at
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