Resources to build from the developing mouse brain reference atlas

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Researchers sometimes inquire whether we have a reference brain volume for juvenile mouse, analogous to the reference framework we have for adult P56 mouse (sometimes referred to as a common coordinate framework, and described in detail in the technical documentation for the Connectivity Atlas). We do not have an ‘average’ reference volume comprised of autofluorescent images, which is how the adult version was created, but we do have 2D reference sets that our gene expression data is registered to - and those are programmatically accessible through the Developing Mouse Brain API.

Example cases for using the reference atlas images and associated data include a Matlab script for download and use of the P4 mouse brain. If you have other examples you’ve developed, feel free to share them here!