MetNet: Software to Build and Model the Biogenetic Lattice of Arabidopsis.
MetNet: Software to Build and Model the Biogenetic Lattice of Arabidopsis.
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DOI：
10.1002/cfg.285
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发表时间：
2003
影响因子：
--
通讯作者：
Hofmann, H
中科院分区：
文献类型：
--
作者：
Wurtele, ES;Li, J;Diao, LX;Zhang, HL;Foster, CM;Fatland, B;Dickerson, U;Brown, A;Cox, Z;Cook, D;Lee, EK;Hofmann, H
MetNet（http：//www.botany.iastate.edu/Metmash/metnetex/metabolicnetex.html）是正在开发的用于分析全基因组RNA、蛋白质和代谢物谱数据的公开可用软件。该软件旨在使生物学家能够可视化，统计分析和建模拟南芥的代谢和调控网络图，结合基因表达谱数据。它包含一个JAVA接口的相互作用数据库（MetNetDB），其中包含来自网络数据库（TAIR，KEGG，BRENDA）和生物学家在其专业领域的输入组合的监管和代谢相互作用的信息。FCModeler以图形形式捕获来自MetNetDB的输入。子网络可以使用简单的模糊认知图来识别和解释。FCModeler旨在开发和评估假设，并为评估高通量基因表达实验捕获的大量数据提供建模框架。FCModeler和MetNetDB目前正在扩展到三维虚拟现实显示。MetNet图谱以及基因表达数据可以使用GGobi中的多变量图形工具与R中的数据分析工具连接查看。用户可以突出显示代谢网络的不同部分，并在其他数据图中看到突出显示的相关表达数据。多维表达式数据可以在不同维度之间旋转。统计分析可以与视觉一起计算。MetNet旨在为制定关于特定基因功能的可验证假设提供框架，并从长远来看为识别控制植物组成和发育的代谢和调控网络提供基础。
MetNet (http://www.botany.iastate.edu/∼mash/metnetex/metabolicnetex.html) is publicly available software in development for analysis of genome-wide RNA, protein and metabolite profiling data. The software is designed to enable the biologist to visualize, statistically analyse and model a metabolic and regulatory network map of Arabidopsis, combined with gene expression profiling data. It contains a JAVA interface to an interactions database (MetNetDB) containing information on regulatory and metabolic interactions derived from a combination of web databases (TAIR, KEGG, BRENDA) and input from biologists in their area of expertise. FCModeler captures input from MetNetDB in a graphical form. Sub-networks can be identified and interpreted using simple fuzzy cognitive maps. FCModeler is intended to develop and evaluate hypotheses, and provide a modelling framework for assessing the large amounts of data captured by high-throughput gene expression experiments. FCModeler and MetNetDB are currently being extended to three-dimensional virtual reality display. The MetNet map, together with gene expression data, can be viewed using multivariate graphics tools in GGobi linked with the data analytic tools in R. Users can highlight different parts of the metabolic network and see the relevant expression data highlighted in other data plots. Multi-dimensional expression data can be rotated through different dimensions. Statistical analysis can be computed alongside the visual. MetNet is designed to provide a framework for the formulation of testable hypotheses regarding the function of specific genes, and in the long term provide the basis for identification of metabolic and regulatory networks that control plant composition and development.
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DOI：
10.1073/pnas.97.1.262
发表时间：
2000-01-04
影响因子：
11.1
作者：
Brown, MPS;Grundy, WN;Haussler, D
通讯作者：
Haussler, D
影响因子：
8.4
作者：
Oliver, DJ;Nikolau, B;Wurtele, ES
通讯作者：
Wurtele, ES
影响因子：
7.4
作者：
Fatland, BL;Ke, JS;Wurtele, ES
通讯作者：
Wurtele, ES
影响因子：
14.9
作者：
Karp, PD;Riley, M;Gama-Castro, S
通讯作者：
Gama-Castro, S
影响因子：
14.9
作者：
Kanehisa, M;Goto, S
通讯作者：
Goto, S