An ATAC-seq protocol for neuroscience research

ATAC-seq (assay for transposase-accessible chromatin using sequencing) enables high resolution mapping of chromatin accessibility, providing critical insights into gene regulatory mechanisms in neuroscience research. This protocol presents an optimized approach for applying ATAC-seq to neural tissues and cells, addressing the unique challenges of preserving chromatin integrity in these delicate samples. We detail the key steps of tissue processing, nuclear isolation, transposition reactions, and library preparation specifically adapted for neural applications. The method requires minimal starting material (20,000-50,000 cells) while maintaining high sensitivity for detecting regulatory elements involved in neural development, plasticity, and neurological disorders. This tailored protocol facilitates robust investigation of neuroepigenomic regulation in diverse experimental contexts.