Web-based metabolic network visualization with a zooming user interface.
Web-based metabolic network visualization with a zooming user interface.
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DOI：
10.1186/1471-2105-12-176
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发表时间：
2011-05-19
影响因子：
3
通讯作者：
Karp PD
中科院分区：
文献类型：
--
作者：
Latendresse M;Karp PD
将复杂的代谢图转换为Web浏览器，并允许用户与它们交互以查询和覆盖表达数据是具有挑战性的。我们提出了一个基于Web的代谢图，它可以由用户交互式探索，称为细胞概述。该应用程序的主要特点是缩放用户界面，使用户能够集中在适当的粒度的网络。各种搜索命令可用于直观地突出显示反应、途径、酶、代谢物等的集合。单个或多个实验的表达数据可以覆盖在图表上，我们称之为组学查看器功能。应用程序提供Web服务来突出显示图表和调用Omics Viewer。这个应用程序完全用JavaScript编写，用于客户端浏览器，并连接到Pathway Tools Web服务器以检索数据和图表。它使用OpenLayers库来显示平铺图。这个新的在线工具能够以非常互动的方式显示大型和复杂的代谢图。此应用程序可作为Pathway Tools软件的一部分提供，该软件为多个代谢数据库提供支持，包括Biocyc.org：可在Tools菜单下访问Cellular Overview。
Displaying complex metabolic-map diagrams, for Web browsers, and allowing users to interact with them for querying and overlaying expression data over them is challenging. We present a Web-based metabolic-map diagram, which can be interactively explored by the user, called the Cellular Overview. The main characteristic of this application is the zooming user interface enabling the user to focus on appropriate granularities of the network at will. Various searching commands are available to visually highlight sets of reactions, pathways, enzymes, metabolites, and so on. Expression data from single or multiple experiments can be overlaid on the diagram, which we call the Omics Viewer capability. The application provides Web services to highlight the diagram and to invoke the Omics Viewer. This application is entirely written in JavaScript for the client browsers and connect to a Pathway Tools Web server to retrieve data and diagrams. It uses the OpenLayers library to display tiled diagrams. This new online tool is capable of displaying large and complex metabolic-map diagrams in a very interactive manner. This application is available as part of the Pathway Tools software that powers multiple metabolic databases including Biocyc.org: The Cellular Overview is accessible under the Tools menu.
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影响因子：
14.9
作者：
Caspi R;Altman T;Dale JM;Dreher K;Fulcher CA;Gilham F;Kaipa P;Karthikeyan AS;Kothari A;Krummenacker M;Latendresse M;Mueller LA;Paley S;Popescu L;Pujar A;Shearer AG;Zhang P;Karp PD
通讯作者：
Karp PD
影响因子：
3
作者：
DeJongh M;Formsma K;Boillot P;Gould J;Rycenga M;Best A
通讯作者：
Best A
影响因子：
14.9
作者：
Paley, Suzanne M.;Karp, Peter D.
通讯作者：
Karp, Peter D.
影响因子：
14.9
作者：
Hu, Zhenjun;Ng, David M.;DeLisi, Charles
通讯作者：
DeLisi, Charles
影响因子：
7.4
作者：
Usadel, B;Nagel, A;Stitt, M
通讯作者：
Stitt, M