Functional Virtual Flow Cytometry: A Visual Analytic Approach for Characterizing Single-Cell Gene Expression Patterns.
Functional Virtual Flow Cytometry: A Visual Analytic Approach for Characterizing Single-Cell Gene Expression Patterns.
复制标题
功能虚拟流式细胞术：表征单细胞基因表达模式的视觉分析方法
DOI：
10.1155/2017/3035481
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发表时间：
2017
影响因子：
--
通讯作者：
Huang K
中科院分区：
文献类型：
--
作者：
Han Z;Johnson T;Zhang J;Zhang X;Huang K
We presented a novel workflow for detecting distribution patterns in cell populations based on single-cell transcriptome study. With the fast adoption of single-cell analysis, a challenge to researchers is how to effectively extract gene features to meaningfully separate the cell population. Considering that coexpressed genes are often functionally or structurally related and the number of coexpressed modules is much smaller than the number of genes, our workflow uses gene coexpression modules as features instead of individual genes. Thus, when the coexpressed modules are summarized into eigengenes, not only can we interactively explore the distribution of cells but also we can promptly interpret the gene features. The interactive visualization is aided by a novel application of spatial statistical analysis to the scatter plots using a clustering index parameter. This parameter helps to highlight interesting 2D patterns in the scatter plot matrix (SPLOM). We demonstrated the effectiveness of the workflow using two large single-cell studies. In the Allen Brain scRNA-seq dataset, the visual analytics suggested a new hypothesis such as the involvement of glutamate metabolism in the separation of the brain cells. In a large glioblastoma study, a sample with a unique cell migration related signature was identified.
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影响因子：
46.9
作者：
Setty M;Tadmor MD;Reich-Zeliger S;Angel O;Salame TM;Kathail P;Choi K;Bendall S;Friedman N;Pe'er D
通讯作者：
Pe'er D
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
DOI：
10.1002/cyto.b.21252
发表时间：
2015-09
期刊：
Cytometry. Part B, Clinical cytometry
影响因子：
--
作者：
DiGiuseppe JA;Tadmor MD;Pe'er D
通讯作者：
Pe'er D
影响因子：
14.8
作者：
Anchang, Benedict;Hart, Tom D. P.;Plevritis, Sylvia K.
通讯作者：
Plevritis, Sylvia K.
影响因子：
14.9
作者：
Chen J;Bardes EE;Aronow BJ;Jegga AG
通讯作者：
Jegga AG