Census of clustered protocaherins in human semi-guided organoids and 1st trimester embryo at single-cell resolution [PCDH_merged]

The establishment of their expression patterns follows rules that are distinct during development compared to adult cells. It remains unknown how these rules are determined and whether are followed in a cell-type specific manner.

This study provides the first census of clustered protocadherins in hiPSC-derived organoids at single-cell resolution using 5' scRNA-seq to capture the distinct region of each member of the clustered protocadherin family and scATAC-seq to characterize the chromatin structure acrosss the locus. A 3' scRNA-seq dataset is used to integrate the 5' scRNA-seq and scATAC-seq datasets by combining the 5' and 3' datasets and leveraging the cellular barcodes in the 3' dataset as anchors for the scATAC-seq dataset, obtained by 3' scRNA/ATAC-seq.