INCF Infrastructure for Interoperable Atlases of Rodent Brain
Event details
| Date | 22.03.2010 |
| Hour | 16:15 |
| Speaker | Dr. Ilya Zaslavsky, San Diego Supercomputer Center, University of California, San Diego, USA |
| Location |
AI 1-153
|
| Category | Conferences - Seminars |
The goal of the INCF Digital Atlasing task force is to define a common framework for exchanging information between neuroscience atlases, across scales, modalities, and semantic and spatial conventions of individual projects. The INCF digital atlasing infrastructure (INCF-DAI) is envisioned as a collection of standard APIs and distributed services that support publication, discovery and invocation of heterogeneous atlas resources. The initial phase of INCF-DAI focuses on interoperability of mouse brain atlases, specifically on different ways of referencing spatial locations in the brain and transforming location information between the atlases.
Multiple renditions of mouse brain space exist, including spatial referencing adopted in the Paxinos and Watson Atlas, Allen Brain Atlas, Edinburgh Mouse Atlas Project (EMAP) and the emerging Waxholm Space (WHS), currently being developed under the aegis of INCF as the target volume for a common spatial reference system. We seek to make these representations of space interoperable, which includes: 1) formally describing the available atlas coordinate systems; 2) defining transformations between WHS and other atlas coordinate systems; 3) developing a standard vocabulary/ontology for neural structures linked to spatial representation of the structures; 4) developing APIs for exchanging spatial information between atlas data resources, service middleware, and client applications; 5) defining a procedure for registering additional atlas coordinate systems to the common framework; 6) supporting spatial querying of multiple distributed atlas databases.
This presentation will review the progress to date, including models of atlas coordinate reference systems and spatial transformations, and service APIs for INCF atlas hubs and the INCF central metadata repository. The spatial data integration concepts will be illustrated using a novel 3D atlas viewer capable of communicating the location of point of interest (POI) to the service layer, and retrieving information from other atlas sources (e.g. anatomic feature names, gene expressions, image fragments, correlation maps) available at the POI transformed to the respective coordinate system of the target atlas.
Ilya Zaslavsky directs Spatial Information Systems Lab at San Diego Supercomputer Center, and leads the INCF Digital Atlasing Infrastructure Task Force (http://www.incf.org/about/programs/atlasing).
Practical information
- General public
- Free
Contact
- Sean Hill