GATE: software for the analysis and visualization of high-dimensional time series expression data
GATE: software for the analysis and visualization of high-dimensional time series expression data
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DOI：
10.1093/bioinformatics/btp628
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发表时间：
2010-01-01
期刊：
影响因子：
5.8
通讯作者：
Ma'ayan, Avi
中科院分区：
文献类型：
--
作者：
MacArthur, Ben D.;Lachmann, Alexander;Ma'ayan, Avi
我们提出了时间序列表达的网格分析（GATE），一个集成的计算软件平台，用于高维生物分子时间序列的分析和可视化。GATE使用基于相关性的聚类算法将分子时间序列排列在二维六边形阵列上，并根据分配给它们的分子组分的表达水平动态地为各个六边形着色，以创建系统级分子调控动力学的动画电影。为了从相关性模式中推断出潜在的监管控制机制，GATE还允许针对各种先验知识数据集对电影进行交互式询问。GATE电影可以暂停并具有交互性，允许用户重建网络并执行功能丰富分析。用GATE制作的电影可以保存为Flash格式，并可以直接插入到PDF手稿文件中作为交互式图形。
We present Grid Analysis of Time series Expression ( GATE), an integrated computational software platform for the analysis and visualization of high-dimensional biomolecular time series. GATE uses a correlation-based clustering algorithm to arrange molecular time series on a two-dimensional hexagonal array and dynamically colors individual hexagons according to the expression level of the molecular component to which they are assigned, to create animated movies of systems-level molecular regulatory dynamics. In order to infer potential regulatory control mechanisms from patterns of correlation, GATE also allows interactive interrogation of movies against a wide variety of prior knowledge datasets. GATE movies can be paused and are interactive, allowing users to reconstruct networks and perform functional enrichment analyses. Movies created with GATE can be saved in Flash format and can be inserted directly into PDF manuscript files as interactive figures.