Multimodal cell type correspondence by intersectional mFISH in intact tissues

Defining a complete set of cell types within the cortex requires reconciling disparate results achieved through diverging methodologies. To address this correspondence problem, multiple methodologies must be applied to the same cells in multiple single-cell experiments. Here we present an approach in which spatial transcriptomics using multiplexed fluorescence in situ hybridization (mFISH) on tissue previously interrogated through two-photon optogenetic mapping of synaptic connectivity can resolve the anatomical, transcriptomic, connectomic, electrophysiological, and morphological characteristics of single cells within the mouse cortex.