Mason: a JavaScript web site widget for visualizing and comparing annotated features in nucleotide or protein sequences.
Mason: a JavaScript web site widget for visualizing and comparing annotated features in nucleotide or protein sequences.
复制标题
DOI：
10.1186/s13104-015-1009-z
复制
发表时间：
2015-03-07
影响因子：
1.8
通讯作者：
Riffle, Michael
中科院分区：
文献类型：
--
作者：
Jaschob, Daniel;Davis, Trisha N;Riffle, Michael
背景：序列特征注释（例如蛋白质结构域边界、结合位点和二级结构预测）是生物学研究的重要组成部分。注释被科学家在研究和实验设计过程中广泛使用，并且通常是生物学研究的结果。通过网络传播和可视化这些数据的通用且简单的方法对于研究界来说是有价值的。调查结果：Mason 是一个网站小部件，旨在可视化和比较一个或多个核苷酸或蛋白质序列的注释特征。带注释的特征实际上可以是任何类型，从注释 DNA 中的转录结合位点或外显子和内含子到蛋白质中的二级结构或结构域边界。 Mason 使用简单且易于集成到网站中。 Mason 拥有高度动态且可配置的界面，支持每个序列的多组注释、重叠区域、界面自定义和用户驱动事件（例如，工具提示中显示的点击和文本）。它纯粹用 JavaScript 和 SVG 编写，不需要第 3 方插件或浏览器定制。 结论：Mason 是一种在网络上传播序列注释数据的解决方案。它高度灵活、可定制、易于使用，并且旨在轻松集成到网站中。 Mason 是开源的，可以在 https://github.com/yeastrc/mason 上免费获取。
BACKGROUND: Sequence feature annotations (e.g., protein domain boundaries, binding sites, and secondary structure predictions) are an essential part of biological research. Annotations are widely used by scientists during research and experimental design, and are frequently the result of biological studies. A generalized and simple means of disseminating and visualizing these data via the web would be of value to the research community.FINDINGS: Mason is a web site widget designed to visualize and compare annotated features of one or more nucleotide or protein sequence. Annotated features may be of virtually any type, ranging from annotating transcription binding sites or exons and introns in DNA to secondary structure or domain boundaries in proteins. Mason is simple to use and easy to integrate into web sites. Mason has a highly dynamic and configurable interface supporting multiple sets of annotations per sequence, overlapping regions, customization of interface and user-driven events (e.g., clicks and text to appear for tooltips). It is written purely in JavaScript and SVG, requiring no 3(rd) party plugins or browser customization.CONCLUSIONS: Mason is a solution for dissemination of sequence annotation data on the web. It is highly flexible, customizable, simple to use, and is designed to be easily integrated into web sites. Mason is open source and freely available at https://github.com/yeastrc/mason.