FFA mouse brain

FFA mouse brain constructs anatomically hierarchical, customizable annotation atlases of the mouse brain to define reproducible regions-of-interest (ROIs) for structural and resting-state functional neuroimaging analyses using Allen Institute for Brain Science (AIBS) data.

Key Features:

• Flexibility and Customization: Allows combination or division of annotation volume (AV) nodes while preserving the anatomical hierarchy via a two-step procedure using text-based specifications and Python code.
• Reproducibility and Consistency: Standardizes ROI creation to reduce arbitrary ROI definitions and improve consistency across laboratories and studies.
• Functional Connectivity Analysis: Enables resting-state functional connectivity (FC) analyses across anatomical hierarchies and cortical layers, including thin but spatially extensive structures.
• Multiple Annotation Levels: Provides FAAs at multiple granularities, exemplified by node counts of 4, 101, 866, and 1,381.

Scientific Applications:

• ROI Standardization: Defines objective whole-brain ROIs to improve cross-laboratory reproducibility in neuroimaging studies.
• Multiscale Neuroimaging Analyses: Supports basic and advanced neuroimaging investigations, including multiscale resting-state FC and hierarchical structural analyses.

Methodology:

Constructs FAAs by leveraging public AIBS resources (brain structure, gene expression, and axonal projection data) and applying a two-step procedure that integrates user-specified text information with Python code.