Department of Orthopedic Surgery, Washington University in St. Louis, St. Louis, Missouri, USA.
Shriners Hospitals for Children-St. Louis, St. Louis, Missouri, USA.
FASEB J. 2019 Jan;33(1):358-372. doi: 10.1096/fj.201800534R. Epub 2018 Jul 9.
Mesenchymal stem/stromal cells (MSCs) provide an attractive cell source for cartilage repair and cell therapy; however, the underlying molecular pathways that drive chondrogenesis of these populations of adult stem cells remain poorly understood. We generated a rich data set of high-throughput RNA sequencing of human MSCs throughout chondrogenesis at 6 different time points. Our data consisted of 18 libraries with 3 individual donors as biologic replicates, with each library possessing a sequencing depth of 100 million reads. Computational analyses with differential gene expression, gene ontology, and weighted gene correlation network analysis identified dynamic changes in multiple biologic pathways and, most importantly, a chondrogenic gene subset, whose functional characterization promises to further harness the potential of MSCs for cartilage tissue engineering. Furthermore, we created a graphic user interface encyclopedia built with the goal of producing an open resource of transcriptomic regulation for additional data mining and pathway analysis of the process of MSC chondrogenesis.-Huynh, N. P. T., Zhang, B., Guilak, F. High-depth transcriptomic profiling reveals the temporal gene signature of human mesenchymal stem cells during chondrogenesis.
间充质干细胞（MSCs）为软骨修复和细胞治疗提供了有吸引力的细胞来源；然而，这些成体干细胞的软骨生成的潜在分子途径仍知之甚少。我们在 6 个不同的时间点对人类 MSCs 的整个软骨生成过程进行了高通量 RNA 测序，生成了丰富的数据集。我们的数据由 18 个文库组成，每个文库包含 3 个个体供体作为生物学重复，每个文库的测序深度为 1 亿个读数。通过差异基因表达、基因本体和加权基因相关网络分析的计算分析，确定了多个生物学途径的动态变化，最重要的是，确定了一个软骨生成基因子集，其功能特征有望进一步利用 MSCs 用于软骨组织工程。此外，我们创建了一个图形用户界面百科全书，旨在生成一个转录组调控的开放资源，用于进一步挖掘 MSC 软骨生成过程的数据挖掘和途径分析。
