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Single cell lncRNAs in hematopoiesis
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Figure 3. Long noncoding RNA expression exhibited a cell stage-specific pattern. (A) Single cell RNA sequencing (scRNA-seq) data of 391 cells with merely long non- coding RNA (lncRNA) expression were clustered using t-SNE in the Seurate package to obtain nonlinear dimension reduction and visualization in two dimensions (t- SNE1 and t-SNE2). scRNA-seq data of two different cell stages (CD34+CD38- and CD34+CD38+) sorted by FACS were plotted in red and blue, respectively. (B) Heatmaps of messenger RNA (mRNA) (left) and lncRNA (right) expression in CD34+CD38- and CD34+CD38+ cells. (C) Modules of protein-coding and lncRNA-encoding gene expression across single cells identified through weighted gene co-expression network analysis. Gene co-expression modules including both lncRNAs and mRNAs based on expression quantity and seven unsupervised modules are distinguished by colors (top panel); gene ontology (GO) terms for each module of genes identified in the co-expression matrix (middle panel); expression levels of individual modules of genes in different cell types (bottom panel). Detailed information on individual gene modules is presented in Online Supplementary Table S4.
haematologica | 2019; 104(5)
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