Fig. 3.

Pairwise Spearman rank correlation coefficients between different Proximity RNA-seq libraries. Correlations between different Proximity RNA-seq datasets using the number of proxy reads (upper, right triangle) or the number of detected co-barcoding events between two transcripts (lower, left triangle) as variables. Libraries p2, p5 and p8 are biological replicates with crosslinked nuclear homogenates from SH-SY5Y cells. p1 is a control library with randomly barcoded, non-clonal beads, p3 is a control with reverse-crosslinked RNA. p4 has been prepared in parallel and is comparable in sequencing depth to p1 and p3. Subsequently, p4 has been sequenced deeper to generate p5.