Fig. 3

Genome-wide analysis of LINP1-regulated transcriptomic changes by RNA-Seq in cSCC cells. A Visualization of LINP1 in HSC-1 cells by RNA fluorescence in situ hybridization (FISH) and quantitative analysis of the ratio of LINP1 in the cytoplasm and nucleus. Scale bars, 50 μm. B After isolating the cytoplasmic RNA and nuclear RNA of HSC-1 cells, qRT-PCR was performed to detect the portions of LINP1 in cytoplasm and nucleus. C Total RNAs were isolated from HSC-1 cells treated with siNC or siLINP1 oligos and subjected to sequencing. Differentially expressed genes between siNC-treated and siLINP1-treated HSC-1 cells were determined by RNA-Seq and shown by volcano plot. The dots indicating the normalized expression of LINP1 and DDIT3 were shown. D Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis of the differentially-expressed genes after LINP1 knockdown. “Protein processing in endoplasmic reticulum”, “Transcriptional misregulation in cancer” and “Apoptosis” were highlighted. Color bars at the right represent gene clusters established through k-means clustering. E Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis of the differentially-expressed genes after LINP1 knockdown. Unfolded protein response and apoptosis-related categories are listed