Ascertaining cells' synaptic connections and RNA expression simultaneously with barcoded rabies virus libraries

We describe "SBARRO" a system in which synaptic networks of cells are reconstructed from scRNA-seq data using clonal infectivity paths of barcoded rabies virus RNAs single-cell RNA-seq libraries were collected from cell infected with barcoded rabies virus. Barcoded viral mRNAs were used to reconstruct inferred synaptic networks. Host cell RNAs were used to identify cell types and states as well as pre vs postsynaptic identity