We aim to uncover the rules by which the information encoded in the human genome governs biological processes in health and disease. Our work is motivated by the belief that a quantitative and mechanistic understanding of gene regulation is essential for the development of novel therapeutics and diagnostics. We combine (1) the development of multi-modal single-cell and single-molecule genomics technologies, (2) the generation of high-resolution cellular atlases of healthy and diseased tissues using single-cell methods, (3) organoid-based cell culture systems to model healthy and diseased states ex vivo (4) and CRISPR-based genetic perturbations for high-throughput functional screens of regulatory features.