RNA-Seq transcriptome analysis on Pdx1 + Ngn3 co-transfected rat bmMSCs

We report the application of RNA-Seq technology for transcriptome analysis on Pdx1 + Ngn3 co-transfected bmMSCs. Bioinformatics analyses indicated that clean reads of the two libraries accounted for 97.24% and 97.97% of the total reads, which indicated high quality of the raw datasets. Total 2325 differentially expressed genes (DEGs) were identified in reprogrammed bmMSCs compared to the negative control, including 1476 genes up-regulated and 849 genes down-regulated. The RNA-Seq analysis globally validated in the reprogrammed cells the expression of a large number of genes involved in pancreas development, endocrine specification and islet differentiation. To the best of our knowledge, this is the first application of RNA-Seq analysis on reprogrammed MSCs towards pancreatic cells.本研究报道了RNA测序（RNA-Seq）技术在共转染Pdx1与Ngn3的骨髓间充质干细胞（bmMSCs）转录组分析中的应用。生物信息学分析结果显示，两个文库的清洁读段（clean reads）分别占总读段的97.24%与97.97%，表明原始数据集质量优异。相较于阴性对照，重编程骨髓间充质干细胞中共鉴定出2325个差异表达基因（DEGs），其中1476个基因上调表达，849个基因下调表达。本次RNA-Seq分析在重编程细胞中全面验证了大量参与胰腺发育、内分泌细胞特化及胰岛分化的基因的表达情况。据我们所知，这是首次将RNA-Seq分析应用于向胰腺细胞定向重编程的间充质干细胞（MSCs）。