Allen Brain Atlas API">Allen Brain Atlas API

The Allen Institute for Brain Science offers access to its published data through an application programming interface (API). The API, documentation, sample applications, and 2012 Allen Brain Atlas Hackathon materials are made available to the community under the Allen Institute's Terms of Use in hopes of facilitating discovery.

Learn about the API with these atlas and resource overviews:

Atlases

Mouse Brain

Developing Mouse Brain

Mouse Connectivity

Human Brain
Developing Human Brain
Non-Human Primate

Getting Started

Familiarize yourself with the available data and methods, as well as how to take advantage of resources by reading these overviews:

Atlases

Accessing Data and Services

In the spirit of REST, the Allen Institute publishes its data model as documents that can be requested using the standard HTTP method, GET. Use RESTful Model Access (RMA) with the following services for searching and downloading data:

• RESTful Model Access (RMA) for searching and retrieving data in JSON, XML and CSV
• SectionImage, AtlasImage, and ProjectionImage download services for whole or partial images
• NeuroBlast Service for finding genes with a similar spatial expression profile to a seed gene when compared over a user-specified domain
• Differential Search Service for finding genes with higher expression in 1..n structures when compared to another 1..n structures
• Image-to-Image Synchronization Service uses alignment results to find corresponding position between SectionDataSets, the 3-D reference model and structures
• Structure Graph Download Service for downloading anatomic structure ontologies
• 3-D Expression Grid Data Service for a 3-D gene expression summary re-sampled to a canonical reference space