Skip to main content
Fig. 1 | Genome Biology

Fig. 1

From: SINC-seq: correlation of transient gene expressions between nucleus and cytoplasm reflects single-cell physiology

Fig. 1

Single-cell integrated nuclear and cytoplasmic RNA-seq (SINC-seq). a SINC-seq and conventional scRNA-seq. b Workflow of SINC-seq. Single-cell isolation at a hydrodynamic trap via pressure-driven flow (t = 0 s); lysis of cell membrane and cytRNA extraction with isotachophoresis (ITP)-aided nucleic acid extraction (t > 0 s); ITP acceleration by changing voltages (t = 40 s); voltage deactivation and sample collection from the wells of the microchannel (t > 200 s). c Fluorescence microscopy images of the trapped single cell and nucleus after cytRNA extraction (stained with Hoechst) and extracted cytRNA stained with SYBR Green II. Scale bars are 20 μm. d Venn diagram of mean numbers of detected genes in cytRNA-seq and nucRNA-seq. e Percent proportion of abundance of transcripts in the cytoplasm. f Differential expression analysis between cytRNA and nucRNA. Genes enriched in cytRNA are on the right-hand side. Blue, genes with p values less than 0.001 and absolute log2 fold changes greater than unity. g Correlation coefficients of gene expression pattern computed with respect to the conventional scRNA-seq; our novel in silico single-cell normalization showed the best correlation with the scRNA-seq. We also include correlation of nucRNA vs. its in silico single cell

Back to article page