A comprehensivly analysis of SE -lncRNA /mRNAs differential expression profiles during chondrogenic differentiation of human bone marrow mesenchymal stem cells

To clarify the important signaling pathways, SE-lncRNAs, and mRNAs associated with SE-lncRNAs regulating chondrogenic differentiation of BMSCs, we assessed the expression of SE-lncRNAs and mRNAs in three pairs of non-induced and the corresponding induced chondrogenic differentiation human Bone marrow-derived mesenchymal stem cells samples by using Human Super-Enhancer LncRNA Microarray. A total of 77 SE-lncRNAs were identified with 47 SE-lncRNAs upregulated and 30 SE-lncRNAs downregaulated as chondrogenic differentiation. 308 mRNAs were identified with 245 mRNAs upregulated and 63 mRNAs downregulated. Some pathways, such as the focal adhesion, extracellular matrix (ECM)-receptor interaction, TGF-b signaling pathway, and PI3K-Akt signaling pathway, were identified as the key pathways may be involved in the chondrogenic differentiation of BMSCs. Moreover, 5 potentially core regulatory mRNAs (PMEPA1, ENC1, TES, CDK6, ADIRF) and 37 SE-lncRNAs in chondrogenic differentiation were revealed by bioinformatic analysis. Three uninduced and paired induced chondrogenic differentiation 7days were subjected to Arraystar human microarray analysis to determine differentially expressed SE-LncRNAs and mRNA. All experiment procedures were performed following the Arraystar standard protocol.