MBAT | Mouse BIRN Atlasing Toolkit

Reference biological/biomedical imagery is critically important for providing context for observations and experimentation. MBAT empowers researchers to discover correlations among disparate data by providing a unified environment for bringing together online reference resources, a user’s image data, and biological atlases into the same spatial or semantic context. Through its extensible plug-in architecture, MBAT allows researchers to customize all platform components to quickly achieve personalized workflows.

MBAT integrates three distinct workspaces for online search, image alignment (registration) and image display:

Search Workspace: able to submit a query to multiple databases simultaneously. More

Registration Workspace: performs 2D and 3D image alignment (spatial registration). More

Viewer Workspace: displays & composites images and image volumes using high performance graphics hardware. More

Atlas Viewer: allows navigation and interrogation of volumetric atlases. More

A wide range of 3D atlases available for use including:

• Adult and neonatal MRI and histological mouse brain
• MRI human brain (ICBM & LPBA40)
• MRI mouse development (Theiler Stage 13-26)
• MRI quail development (Embryonic Day 6-13)

• Windows, Mac OS X, Linux
• Java 1.6 or above
• OpenGL 1.5
• 2 GB RAM recommended