Studies in model organisms can help elucidate the molecular mechanisms causing disease, and the dog is an excellent example as it shares many of the same environment, diseases and genes with humans. In this project, we aim to investigate the canine brain by analyzing several functional genomics datasets from 4-6 canine brains and 8 regions within these, to improve the gene annotation and facilitate for comparative studies across human, mouse and dog. We have generated different data sets for expression, genome spatial organization and gene regulation like ATAC-seq, micro-C, methylation and ChIP-seq for CTCF, H3K4me3 and H3K27me3. We currently have Parse Biosciences and 10x Genomics single nuclei (sn) RNA-sequencing data from each brain region and we aim to identify patterns of expression in unique cell populations of the canine brain. Detailed mouse and human RNA-seq and functional genomics datasets at both whole-tissue and single-cell levels are available among our collaborators, allowing us to explore the similarities and differences in expression levels and genome structure and regulation between dogs and humans and to determine how tissues and cell types cluster within and across species.