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Abstract #4213

Integrating MR with 3D Gene Expression Data in the Mouse Brain

Christopher Lau1, Lydia Ng1, Chihchau Kuan1, Changkyu Lee1, Mallar Chakravarty1, Allan Jones1, George Allan Johnson2, Michael Hawrylycz1

1Allen Institute for Brain Science, Seattle, WA, United States; 2Center for In Vivo Microscopy, Duke University

The Allen Brain Atlas (ABA) adult C56BL/6J mouse brain database of over 20,000 in situ gene expression patterns was registered with a set of multispectral 21.5 micron resolution target MR volumes (T1, T2, and T2*). We developed a 3D viewing application that enables comparison of gene expression patterns with MR data. The application can search for genes expressing in regions of interest defined in MR images, and co-visualize gene expression or histology with MR. This application forms a bridge between the transcriptome and MR data in the mouse brain.