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Studying the spatiotemporal control of gene regulatory networks at the single‐cell level is still a challenge, yet it is key to understanding the mechanisms driving cellular identity. In their recent study, Aerts and colleagues (González‐Blas et al, 2020) develop a new strategy to spatially map and integrate single‐cell transcriptome and epigenome profiles in the Drosophila eye‐antennal disc and to deduce in each cell precise enhancer‐to‐gene activity relationships. This opens a new era in the transcriptional regulation field, as it allows extracting from each of the thousands of cells forming a tissue the critical features driving their identity, from enhancer sequences to transcription factors to gene regulatory networks.