A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila.
A database and tool, IM Browser, for exploring and integrating emerging gene and protein interaction data for Drosophila.
复制标题
DOI：
10.1186/1471-2105-7-195
复制
发表时间：
2006-04-07
影响因子：
3
通讯作者：
Finley RL Jr
中科院分区：
文献类型：
--
作者：
Pacifico S;Liu G;Guest S;Parrish JR;Fotouhi F;Finley RL Jr
生物过程是由相互作用的基因和蛋白质网络调节的。绘制和理解这些网络的努力正在导致从一些生物体的实验和计算技术获得的相互作用数据的激增。这些数据的数量之大，再加上其可能采取的各种具体形式，就产生了对包括所有现有数据集的综合数据库的需求，以及对促进数据整合和分析的探索工具的需求。一个用于导航和分析交互作用数据的强大范例是交互作用图或图，它将蛋白质或基因表示为通过交互作用链接的节点。已经开发了几个用于交互数据的图形表示和分析的程序，但是仍然需要能够为临时用户提供对许多现有的和新兴的数据集的快速、容易的访问的替代程序。在这里，我们描述了一个从各种来源收集的果蝇基因和蛋白质相互作用的综合数据库，包括低通量和高通量筛选、遗传相互作用和计算预测。我们还提出了一个程序，用于探索多个交互数据集和组合来自不同来源的数据。该程序称为交互地图(IM)浏览器，是一个基于Web的应用程序，用于搜索和可视化存储在关系数据库系统中的交互数据。使用该应用程序不需要下载，也不需要最少的用户配置或培训，从而实现对交互数据的快速初始访问。IM浏览器旨在方便地容纳和集成新类型的交互数据，因为它变得可用。此外，与相互作用测量或预测以及涉及的基因或蛋白质相关的所有信息都是用户可以访问的。这允许基于公共或技术特定属性的组合搜索和分析。数据可以可视化为可编辑的图形，并且可以下载全部或部分数据，以便使用针对特定应用程序的其他工具进行进一步分析。这个数据库可以在这里描述的果蝇互动数据库中找到，它将各种不同的数据放在一个容易访问的位置。该数据库有一个简单的结构，它维护有关如何确定每个交互的所有相关信息。IM浏览器提供了对该数据库的简单、完整的访问，并且可以很容易地用于发布其他交互数据集。通过提供对各种数据类型的所有可用信息的访问，该程序还将促进高级计算分析。
Biological processes are mediated by networks of interacting genes and proteins. Efforts to map and understand these networks are resulting in the proliferation of interaction data derived from both experimental and computational techniques for a number of organisms. The volume of this data combined with the variety of specific forms it can take has created a need for comprehensive databases that include all of the available data sets, and for exploration tools to facilitate data integration and analysis. One powerful paradigm for the navigation and analysis of interaction data is an interaction graph or map that represents proteins or genes as nodes linked by interactions. Several programs have been developed for graphical representation and analysis of interaction data, yet there remains a need for alternative programs that can provide casual users with rapid easy access to many existing and emerging data sets. Here we describe a comprehensive database of Drosophila gene and protein interactions collected from a variety of sources, including low and high throughput screens, genetic interactions, and computational predictions. We also present a program for exploring multiple interaction data sets and for combining data from different sources. The program, referred to as the Interaction Map (IM) Browser, is a web-based application for searching and visualizing interaction data stored in a relational database system. Use of the application requires no downloads and minimal user configuration or training, thereby enabling rapid initial access to interaction data. IM Browser was designed to readily accommodate and integrate new types of interaction data as it becomes available. Moreover, all information associated with interaction measurements or predictions and the genes or proteins involved are accessible to the user. This allows combined searches and analyses based on either common or technique-specific attributes. The data can be visualized as an editable graph and all or part of the data can be downloaded for further analysis with other tools for specific applications. The database is available at The Drosophila Interactions Database described here places a variety of disparate data into one easily accessible location. The database has a simple structure that maintains all relevant information about how each interaction was determined. The IM Browser provides easy, complete access to this database and could readily be used to publish other sets of interaction data. By providing access to all of the available information from a variety of data types, the program will also facilitate advanced computational analyses.
登录
查看更多内容
影响因子：
64.8
作者：
Gavin, AC;Bösche, M;Superti-Furga, G
通讯作者：
Superti-Furga, G
影响因子：
3
作者：
Bader, GD;Hogue, CW
通讯作者：
Hogue, CW
影响因子：
46.9
作者：
Bader, GD;Hogue, CWV
通讯作者：
Hogue, CWV
影响因子：
64.5
作者：
Bai, C;Sen, P;Elledge, SJ
通讯作者：
Elledge, SJ
影响因子：
14.9
作者：
Bader, GD;Betel, D;Hogue, CWV
通讯作者：
Hogue, CWV