Abstract:The interactions between DNA and proteins play a pivotal role in cellular processes, underpinning the basis for DNA replication and transcriptional regulation, which are essential for cell growth, development, and adaptation to environmental changes. These interactions primarily occur through the specific recognition and binding of DNA sequences by the DNA-binding domains of proteins. A comprehensive understanding of these interactions is not only critical for elucidating biological mechanisms but also holds significant implications for the research on diseases, drug discoveries, and engineering of industrial strains. This review highlights both traditional and recently developed methods for studying DNA-protein interactions, analyzing their principles, advantages, limitations, and application cases. Additionally, it discusses potential avenues for improvement and explores emerging application scenarios in this rapidly evolving field. Therefore, this review provides researchers with a quick and comprehensive understanding of the advantages, challenges, and future outlooks of various methods of DNA-protein interaction research as well as valuable insights for the further innovation and integration of relevant techniques.