DNA is the major genetic material. In eukaryotic cells, genomic DNA, which can be as long as several meters, are folded inside a nucleus of a few micrometers in diameter. Despite this tight packing, important genomic processes, such as transcription and DNA replication, remain functional. The key to understand how genetic information are expressed and transmitted relies on the study of the genome. We are interested in developing methods to probe both the structure and function of the genome in single cells, including accurate amplification and sequencing of the single-cell whole genome, reconstruction of the three-dimensional genome structure and detection of chromatin accessible regions, positioning of nucleosomes and DNA-protein interactions. By leveraging the power of these cutting-edge technologies, we focus on the study of basic biological questions, such as genome stability, regulation of gene expression and the role of 3D genome organization.