Landscape of transcription and expression regulated by DNA methylation related to age of donor and cell passage in adipose-derived mesenchymal stem cells.
Landscape of transcription and expression regulated by DNA methylation related to age of donor and cell passage in adipose-derived mesenchymal stem cells.
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脂肪间充质干细胞中与供体年龄和细胞传代相关的 DNA 甲基化调控的转录和表达景观
DOI：
10.18632/aging.103809
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发表时间：
2020-10-31
期刊：
影响因子：
--
通讯作者：
Li HM
中科院分区：
文献类型：
--
作者：
Lu GM;Rong YX;Liang ZJ;Hunag DL;Ma YF;Luo ZZ;Wu FX;Liu XH;Liu Y;Mo S;Qi ZQ;Li HM
脂肪来源间充质干细胞（ADSCs）是多能基质细胞，可分化为多种细胞类型，包括皮肤细胞。对不同年龄和细胞传代的细胞进行高通量测序，获得其甲基化、mRNA表达和蛋白质谱数据。然后使用R中的TCGAbiolinks包计算每个样本的干性。使用加权基因共表达网络分析（WGCNA）鉴定共表达模块，并对相应模块进行串扰分析。使用ClusterProfile包对模块基因进行功能注释。最后，使用Cytoscape软件可视化调控网络图。首先，共鉴定出16个模块，其中筛选出3个与表型最相关的模块。结合RNA测序、DNA甲基化测序和蛋白质iTRAQ筛选出29个基因。最后，构建了由年龄相关ADSCs的RNA表达、DNA甲基化和蛋白质谱组成的综合图谱。总体而言，对ADSCs的不同组学进行了综合分析，以揭示其生长和发育的相关机制。探讨了年龄、细胞传代和干性对ADSCs治疗效果的影响。此外，为再生医学选择合适的ADSC供体提供了理论基础。
Adipose-derived mesenchymal stem cells (ADSCs) are pluripotent stromal cells that can differentiate into a variety of cell types, including skin cells. High-throughput sequencing was performed on cells of different ages and cell passage, obtaining their methylation, mRNA expression, and protein profile data. The stemness of each sample was then calculated using the TCGAbiolinks package in R. Co-expression modules were identified using WGCNA, and a crosstalk analysis was performed on the corresponding modules. The ClusterProfile package was used for the functional annotation of module genes. Finally, the regulatory network diagram was visualized using the Cytoscape software. First, a total of 16 modules were identified, where 3 modules were screened that were most relevant to the phenotype. 29 genes were screened in combination of the RNA seq, DNA methylation seq and protein iTRAQ. Finally, a comprehensive landscape comprised of RNA expression, DNA methylation and protein profiles of age relevant ADSCs was constructed. Overall, the different omics of ADSCs were comprehensively analyzed in order to reveal mechanisms pertaining to their growth and development. The effects of age, cell passage, and stemness on the therapeutic effect of ADSCs were explored. Additionally, a theoretical basis for selecting appropriate ADSC donors for regenerative medicine was provided.
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WGCNA：用于加权相关网络分析的 R 包。
影响因子：
3
作者：
Langfelder P;Horvath S
通讯作者：
Horvath S
影响因子：
3.6
作者：
Ko, Sae Hee;Nauta, Allison;Longaker, Michael T.
通讯作者：
Longaker, Michael T.
影响因子：
0.3
作者：
Kasprowska-Liskiewicz, Daniela
通讯作者：
Kasprowska-Liskiewicz, Daniela
影响因子：
14.9
作者：
Colaprico A;Silva TC;Olsen C;Garofano L;Cava C;Garolini D;Sabedot TS;Malta TM;Pagnotta SM;Castiglioni I;Ceccarelli M;Bontempi G;Noushmehr H
通讯作者：
Noushmehr H
影响因子：
168.9
作者：
Panes, Julian;Garcia-Olmo, Damian;Danese, Silvio
通讯作者：
Danese, Silvio