论文标题
使用单细胞熵来描述诱导多能干细胞的重编程和分化的动力学
Using single-cell entropy to describe the dynamics of reprogramming and differentiation of induced pluripotent stem cells
论文作者
论文摘要
诱导的多能干细胞（IPSC）提供了研究干细胞重编程和分化过程的绝佳模型。单细胞RNA测序（SCRNA-SEQ）使我们能够在单细胞水平上研究重编程过程。在这里，我们将单细胞熵（Scentropy）作为宏观变量引入，以在IPSC的重编程和分化过程中从SCRNA-SEQ数据中量化细胞转录组。 Scentropy在细胞命运变化过程中测量单细胞水平上基因组转录的相对顺序参数，这表明在分化过程中增加，并且在重编程后减少。此外，基于香气动力学，我们构建了一个现象学随机微分方程模型和IPSC分化过程中细胞状态转变的相应的fokker plank方程，这为推断细胞命运变化和干细胞分化提供了见解。这项研究是第一个将新颖的Scentropy概念引入IPSC的生物学过程的研究，并表明Scentropy可以提供合适的量化，以描述干细胞分化和重编程中的细胞命运过渡。
Induced pluripotent stem cells (iPSCs) provide a great model to study the process of reprogramming and differentiation of stem cells. Single-cell RNA sequencing (scRNA-seq) enables us to investigate the reprogramming process at single-cell level. Here, we introduce single-cell entropy (scEntropy) as a macroscopic variable to quantify the cellular transcriptome from scRNA-seq data during reprogramming and differentiation of iPSCs. scEntropy measures the relative order parameter of genomic transcriptions at single cell level during the cell fate change process, which shows increasing during differentiation, and decreasing upon reprogramming. Moreover, based on the scEntropy dynamics, we construct a phenomenological stochastic differential equation model and the corresponding Fokker-Plank equation for cell state transitions during iPSC differentiation, which provide insights to infer cell fates changes and stem cell differentiation. This study is the first to introduce the novel concept of scEntropy to the biological process of iPSC, and suggests that the scEntropy can provide a suitable quantify to describe cell fate transition in differentiation and reprogramming of stem cells.
