yylncT acts as a gatekeeper of the mesodermal transcriptional program by local modulation of DNMT3B [human_2]

Bidirectional transcription is a prevalent feature of eukaryotic promoters. The goal of this study is to identify novel divergent long-coding RNAs during differentiation of human ES to cardiomyocytes. Methods: Paired end RNA-Seq was performed on key time-points of human ES cell differentiation to cardiomyocytes. The time-points include day2, day4, day6 and day8. Results: Using an optimized data analysis workflow, we mapped about ~70 million sequence reads per sample to the human genome (build hg38) and identified 781 novel yylncRNAs during ES cell differentiation to cardiomyocytes. Expression kinetics of a subset of yylncRNAs identified from RNA-Seq had a linear relationship with qRT–PCR . Conclusions: Our study represents the detailed analysis of the genome wide identification of divergent long-coding RNA generated by paired end RNA-seq technology. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of long-non coding RNA content within a cell. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biological functions. We have used 4 different time-point (all in duplicates), covering key stages of human ES cell differentiation to cardiomyocytes. It includes day 2 (late mesoderm), day 4 (cardiac mesoderm), day 6 (cardiac progenitors) and day 8 (early cardiomyocytes).