1. Single-cell atlas of lincRNA expression during mESC to NPC differentiation.
Single-cell atlas of lincRNA expression during mESC to NPC differentiation. (A) Bulk RNA-seq heat map of differentially expressed mRNAs and lincRNAs in mESCs grown in 2i + LIF medium, mESCs grown in serum + LIF medium, or derived NPCs. Black bars on the left indicate lincRNAs, and lincRNAs explored in this study are labelled on the right. The 2,000 genes with highest variance were selected. (B) An example of a lincRNA with strong differential expression (bulk RNA-seq) during mESC to NPC differentiation. (C) LincRNA and mRNA expression distributions from bulk RNA-seq analysis of mESCs (serum + LIF). (D) Two-dimensional t-SNE (t-Distributed Stochastic Neighbor Embedding) projection of single cells during mESC to NPC differentiation, coloured by sample (“cell annotations”) or the expression of marker genes. (E) Heat map showing the most variably expressed mRNAs and lincRNAs during mESC to NPC differentiation (rows), across single cells (columns). Protein-coding genes encoding stem cell, neuronal, or cell cycle factors are highlighted (green, blue, and violet bars), as are lincRNAs (black bars). LincRNAs selected for further study are indicated by red bars. (F) Magnified view of the highlighted region (red rectangle) from (E), revealing subpopulations of serum + LIF mESCs with characteristic expression of pluripotency markers (rows indicated with orange labels) and lincRNAs (rows indicated with black bars). Previously reported subpopulations are indicated (columns highlighted by green bars underneath). See also Fig S1 and Table S1A.
Alex C Tuck et al. LSA 2018;1:e
© 2018 Tuck et al.