BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams.
BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams.
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DOI：
10.1186/1471-2164-9-488
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发表时间：
2008-10-16
期刊：
影响因子：
4.4
通讯作者：
Alkema W
中科院分区：
文献类型：
--
作者：
Hulsen T;de Vlieg J;Alkema W
在许多基因组学项目中，产生了大量包含生物识别符的列表。通常，查看不同列表之间的重叠是有用的，这使研究人员能够快速观察他们正在分析的数据集之间的相似和差异。可视化数据集之间的重叠和差异最流行的方法之一是维恩图：一种由两个或更多个圆组成的图，其中每个圆对应一个数据集，圆之间的重叠对应于数据集之间的重叠。维恩图在面积成比例时特别有用，即圆的大小和重叠的大小对应于数据集的大小。目前还没有可用的程序可以创建连接到广泛的生物数据库的面积比例维恩图。我们设计了一个名为BioVenn的Web应用程序，使用面积比例维恩图来总结两个或三个标识符列表之间的重叠。用户只需在文本框中输入这些标识符列表并按下提交按钮。颜色和文本大小等参数可以通过Web界面轻松调整。文本的位置可以通过拖放原理进行调整。输出的维恩图可以显示为嵌入在Web应用程序中的SVG或PNG图像，也可以显示为独立的SVG或PNG图像。后一选项对于批次查询很有用。除了维恩图，BioVenn还输出每个结果子集的标识符列表。如果识别符被识别为属于受支持的生物数据库之一，则输出被链接到该数据库。最后，BioVenn可以将Affymetrix和Entrezgene的识别符映射到EnSembl基因。BioVenn是一个易于使用的Web应用程序，可以从生物标识列表中生成按面积比例的Venn图。它支持来自目前可用的最常用生物数据库的各种识别符。它在万维网上的实现使其可以在任何连接互联网的计算机上使用，独立于操作系统，不需要在本地安装程序。BioVenn是免费访问的。
In many genomics projects, numerous lists containing biological identifiers are produced. Often it is useful to see the overlap between different lists, enabling researchers to quickly observe similarities and differences between the data sets they are analyzing. One of the most popular methods to visualize the overlap and differences between data sets is the Venn diagram: a diagram consisting of two or more circles in which each circle corresponds to a data set, and the overlap between the circles corresponds to the overlap between the data sets. Venn diagrams are especially useful when they are 'area-proportional' i.e. the sizes of the circles and the overlaps correspond to the sizes of the data sets. Currently there are no programs available that can create area-proportional Venn diagrams connected to a wide range of biological databases. We designed a web application named BioVenn to summarize the overlap between two or three lists of identifiers, using area-proportional Venn diagrams. The user only needs to input these lists of identifiers in the textboxes and push the submit button. Parameters like colors and text size can be adjusted easily through the web interface. The position of the text can be adjusted by 'drag-and-drop' principle. The output Venn diagram can be shown as an SVG or PNG image embedded in the web application, or as a standalone SVG or PNG image. The latter option is useful for batch queries. Besides the Venn diagram, BioVenn outputs lists of identifiers for each of the resulting subsets. If an identifier is recognized as belonging to one of the supported biological databases, the output is linked to that database. Finally, BioVenn can map Affymetrix and EntrezGene identifiers to Ensembl genes. BioVenn is an easy-to-use web application to generate area-proportional Venn diagrams from lists of biological identifiers. It supports a wide range of identifiers from the most used biological databases currently available. Its implementation on the World Wide Web makes it available for use on any computer with internet connection, independent of operating system and without the need to install programs locally. BioVenn is freely accessible at .
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影响因子：
14.9
作者：
Flicek P;Aken BL;Beal K;Ballester B;Caccamo M;Chen Y;Clarke L;Coates G;Cunningham F;Cutts T;Down T;Dyer SC;Eyre T;Fitzgerald S;Fernandez-Banet J;Gräf S;Haider S;Hammond M;Holland R;Howe KL;Howe K;Johnson N;Jenkinson A;Kähäri A;Keefe D;Kokocinski F;Kulesha E;Lawson D;Longden I;Megy K;Meidl P;Overduin B;Parker A;Pritchard B;Prlic A;Rice S;Rios D;Schuster M;Sealy I;Slater G;Smedley D;Spudich G;Trevanion S;Vilella AJ;Vogel J;White S;Wood M;Birney E;Cox T;Curwen V;Durbin R;Fernandez-Suarez XM;Herrero J;Hubbard TJ;Kasprzyk A;Proctor G;Smith J;Ureta-Vidal A;Searle S
通讯作者：
Searle S
影响因子：
14.9
作者：
Tatusov, RL;Galperin, MY;Koonin, EV
通讯作者：
Koonin, EV
影响因子：
1.9
作者：
Pirooznia, Mehdi;Nagarajan, Vijayaraj;Deng, Youping
通讯作者：
Deng, Youping
影响因子：
14.9
作者：
Maglott, Donna;Ostell, Jim;Pruitt, Kim D;Tatusova, Tatiana
通讯作者：
Tatusova, Tatiana
影响因子：
14.9
作者：
Pruitt KD;Tatusova T;Maglott DR
通讯作者：
Maglott DR