Fig. 3

Single-cell transcriptomics of lncRNA expression. a Schematic of single-cell microfluidic capture and integration of transcriptome reference generated from bulk tissue RNA-seq to conduct cell-type identification and lncRNA analysis. Previously captured cells from Pollen et al. [32] were also included. b Distributions of median lncRNA expression to median mRNA expression ratios (lncRNA:mRNA) in bulk tissues, in silico merged single cells, and single cells from the developing neocortex. c Proportion of neocortex cells that expressed each lncRNA (blue) and mRNA (red), separated by maximum expression in single cells. d Same as in (c) but grouped by maximum expression quantile of the set of all transcripts (lncRNA and mRNA combined). Green squares, housekeeping genes; black triangles, ERCC Spike-In Controls