Non-human primates provide a unique way to study the only model in which both developmental and pathological features of the brain in a species phylogenetically close to human. In the past decade, breakthrough advances in single-cell sequencing have enabled the mapping of cell taxonomy and heterogeneity in the developing and adult brain of different mammalian species. Here, we generated single-cell chromatin accessibility (single-cell ATAC) and transcriptomic data of 358,237 cells from three cortical regions of the adult cynomolgus monkey Macaca fascicularis brain. We then integrated this dataset with Stereo-seq (Spatio-Temporal Enhanced Resolution Omics-sequencing) of the corresponding cortical areas to assign topographic information to molecular and regulatory states.