Fig. 6
From: Bulk RNA sequencing dataset of Claudin-low breast cancer cell lines with Neuropilin-1 knockdown
RNA-seq validation of NRP1 gene and transcript variant knockdown in claudin-low breast cancer cell lines. (a) Box plot of NRP1 gene expression (FPKM) and (b) bar chart of the isoform percentages (%) of NRP1 transcript variants in SUM159PT, MDA-MB-231 and HS578T cell lines treated with either siNT, siNRP1#3, siNRP1#5 or shNT, shNRP1#3 or shNRP1#5. (c) Schematic of NRP1 gene locus (as per Ensembl.v.114), showing the mapping sites of the total and transmembrane NRP1 primers, as well as the RNAi mapping sites. Note that the sequences for siNRP1#5 and shNRP1#5 are identical, whereas siNRP1#3 and shNRP1#3 sequences differ from each other, with their mapping sites being offset by about 20 nucleotides and hence, are targeting a slightly different subset of transcript variants. Plots were generated using the R packages ggplot2 (v.4.0.0) and transPlotR (v.0.0.2)47.
