Based on this insight, we build multi-omics imaging tools (Gandin et al, 2025) to uncover the mechanisms and tissue-level functions associated with this layer of genomic regulation. Our research focuses on how high dimensional gene co-expression patterns are established during development and maintained in adult tissues. Combining multiplex RNA and protein imaging with genetic perturbations, we aim to identify molecules and networks that regulate gene co-expression and sub-cellular organization within individual cells across large tissue samples. These insights are crucial for understanding how the genome keeps cell types diverse and tissues healthy throughout an animal's life.