BIRN – Biomedical Informatics Research Network

The Upload scripts work in concert with the GridFTP servers, XCEDE, and the standardized data hierarchies to put data onto the GridFTP servers and link it to the appropriate database.

The FBIRN agar phantom is used regularly for Quality Assurance, to assess scanner stability.

Status: In testing (forecast for October 2009)
The Capability Registry capability enables the BIRN community to discover using a central authoritative repository what capabilities the BIRN [...]

This data set consists of spoiled gradient-recalled echo magnetic resonance imaging data from five healthy volunteers (four males and one female) scanned twice at four sites having 1.5T systems from different vendors (Siemens, GE, Marconi Medical Systems).

The BIRN_ID generator can be used to assign a unique ID to subjects in any type of experiment.

MRI Studio is a Windows-based software package, developed at Johns Hopkins University that includes support for 3D visualization, the processing of diffusion tensor data, and image registration.

The Large Deformation Diffeomorphic Metric Mapping (LDDMM) tool is an application which aims to assign metric distances on the space of anatomical images in Computational Anatomy thereby allowing for the direct comparison and quantization of morphometric changes in shapes.

Dr. Joanna Jankowsky at Caltech has developed a Tet-off APP model, in which the expression of APP can be controlled with antibiotic treatment.

Multiple datasets for an Experimental Autoimmune Encephalitis (EAE) mouse model of Multiple Sclerosis.

Duke Center for In-Vivo Microscopy (CIVM) contains high resolution MR brain images of normal and human-disease-model mice, including multiple MRI modalities and structural segmentation.

This atlas is a reconstructed Nissl volume collected from a C57BL/6J neonatal mouse.

This atlas is reconstructed from T2-weighted magnetic resonance images acquired from 8 normal C57BL/6J neonatal mice.

Acquired from six background control (C3HeB) and six dysmyelinating shiverer (C3Fe.SWV shi/shi) mouse brains.

Embryonic and adult mouse brain images were acquired using three dimensional diffusion tensor magnetic resonance microimaging technique.

Acquired from a normal, 100-day old male C57BL/6J mouse, the atlas is comprised of a diffusion-weighted image volume, a label volume, a mask volume, and a label index. (BIRN Atlas Tool (MBAT) or (SHIVA)).

These data provide a high resolution, large scale mosaic image of a cerebellar distribution of cell bodies and alpha-synuclein from a non-transgenic animal (M. Martone; UCSD).

Six treat and 6 normal mice from this experiment are shared on the BIRN Microarray Database.

This atlas is constructed from T2-weighted magnetic resonance microscopy (MRM) images acquired from 11 normal female C57BL/6J mice and is the default atlas for the Mouse BIRN Atlasing Toolkit (MBAT).

The ELUDE dataset is a longitudinal study of late-life depression at Duke University.

This dataset contains the acquired DTI data and the co-registered DTI data for a healthy male volunteer scanned on three separate scanning sessions over 2 days.

A multiple institution study of structural MRI, including raw PD and T2 MRIs and derived measures of white matter changes, basal ganglia and other regions.

This set consists of a cross-sectional collection of 416 human subjects aged 18 to 96, including individuals with Alzheimer’s disease; T1-weighted MRI scans obtained in single scan sessions are included.

The FBIRN multi-site dataset of subjects with schizophrenia and controls includes functional MRI images, behavioral data, demographic, and clinical assessments on 253 subjects from around the US.

This dataset includes five healthy subjects imaged twice at each of ten FBIRN MRI scanners on successive days.

This dataset includes ten healthy subjects scanned 3 times with 3 conditions: eyes open, eyes closed, and fixating in addition to two anatomical scans (T1 and T2).