Single-Cell Transcriptomics-Based Study of Transcriptional Regulatory Features in the Mouse Brain Vasculature.
Single-Cell Transcriptomics-Based Study of Transcriptional Regulatory Features in the Mouse Brain Vasculature.
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DOI：
10.1155/2021/7643209
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发表时间：
2021
影响因子：
--
通讯作者：
Zhu YJ
中科院分区：
文献类型：
--
作者：
Lin WW;Xu LT;Chen YS;Go K;Sun C;Zhu YJ
近年来，血管健康在脑功能中的重要作用受到了广泛关注。在单细胞水平上，对脑血管生长发育过程的研究还相对较少。基于单细胞转录组表达数据构建基因调控网络（grn）的技术近年来取得了重大进展。本研究构建了小鼠脑血管细胞单细胞转录调控网络。小鼠脑血管单细胞RNA-seq数据集从GEO （GSE98816）下载。使用singleR和CellMarker分别对细胞聚类进行注释。然后，我们使用改进版的SCENIC方法来构建grn。接下来，我们使用小鼠版本的SEEK来评估该调控子中的基因是否共表达。最后进行调控模块分析，完成细胞类型关系的定量分析。单细胞RNA-seq数据用于分析小鼠脑血管细胞的异质性，其中定义了内皮细胞、成纤维细胞、小胶质细胞和少突胶质细胞四种细胞类型。这些细胞亚群和标记基因共同表征了小鼠脑血管细胞的分子谱。通过这些特征，确定了维持细胞身份的关键转录调节因子。我们的发现确定了在内皮细胞中起重要作用的Lmo2等基因。同样的细胞类型，例如成纤维细胞，被发现有不同的调控网络，这可能会影响局部组织的功能特征。本研究构建了基于单细胞分析的转录调控网络。此外，该研究使用单细胞转录组数据鉴定和描绘了小鼠脑血管细胞，并定义了影响小鼠脑血管系统调节网络的tf。
The critical role of vascular health on brain function has received much attention in recent years. At the single-cell level, studies on the developmental processes of cerebral vascular growth are still relatively few. Techniques for constructing gene regulatory networks (GRNs) based on single-cell transcriptome expression data have made significant progress in recent years. Herein, we constructed a single-cell transcriptional regulatory network of mouse cerebrovascular cells. The single-cell RNA-seq dataset of mouse brain vessels was downloaded from GEO (GSE98816). This cell clustering was annotated separately using singleR and CellMarker. We then used a modified version of the SCENIC method to construct GRNs. Next, we used a mouse version of SEEK to assess whether genes in the regulon were coexpressed. Finally, regulatory module analysis was performed to complete the cell type relationship quantification. Single-cell RNA-seq data were used to analyze the heterogeneity of mouse cerebrovascular cells, whereby four cell types including endothelial cells, fibroblasts, microglia, and oligodendrocytes were defined. These subpopulations of cells and marker genes together characterize the molecular profile of mouse cerebrovascular cells. Through these signatures, key transcriptional regulators that maintain cell identity were identified. Our findings identified genes like Lmo2, which play an important role in endothelial cells. The same cell type, for instance, fibroblasts, was found to have different regulatory networks, which may influence the functional characteristics of local tissues. In this study, a transcriptional regulatory network based on single-cell analysis was constructed. Additionally, the study identified and profiled mouse cerebrovascular cells using single-cell transcriptome data as well as defined TFs that affect the regulatory network of the mouse brain vasculature.
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影响因子：
64.5
作者：
Riddell J;Gazit R;Garrison BS;Guo G;Saadatpour A;Mandal PK;Ebina W;Volchkov P;Yuan GC;Orkin SH;Rossi DJ
通讯作者：
Rossi DJ
Resolvin D1 通过保护星形胶质细胞线粒体来改善创伤性脑损伤后的认知障碍。
影响因子：
4.7
作者：
Ren, Yi-Zhi;Zhang, Ben-Zheng;Zhang, Zhi-Yuan
通讯作者：
Zhang, Zhi-Yuan
DOI：
10.1002/cne.24924
发表时间：
2020-11-01
期刊：
The Journal of comparative neurology
影响因子：
--
作者：
Murata K;Kinoshita T;Ishikawa T;Kuroda K;Hoshi M;Fukazawa Y
通讯作者：
Fukazawa Y
影响因子：
4.5
作者：
Silpanisong J;Pearce WJ
通讯作者：
Pearce WJ
影响因子：
12.4
作者：
Kim, S-H;Kim, E-J;Kim, H.
通讯作者：
Kim, H.