Abyzov Alexej, Errami Mounir, Leslin Chesley M, Ilyin Valentin A
Department of Biology, Northeastern University, Boston, MA, USA.
Bioinformatics. 2005 Sep 15;21(18):3677-8. doi: 10.1093/bioinformatics/bti602. Epub 2005 Aug 2.
Friend is a bioinformatics application designed for simultaneous analysis and visualization of multiple structures and sequences of proteins and/or DNA/RNA. The application provides basic functionalities, such as structure visualization, with different rendering and coloring, sequence alignment and simple phylogeny analysis, along with a number of extended features to perform more complex analyses of sequence structure relationships, including structural alignment of proteins, investigation of specific interaction motifs, studies of protein-protein and protein-DNA interactions and protein super-families. It is also useful for functional annotation of proteins, protein modeling and protein folding studies. Friend provides three levels of usage: (1) an extensive GUI for a scientist with no programming experience, (2) a command line interface for scripting for a scientist with some programming experience and (3) the ability to extend Friend with user written libraries for an experienced programmer. The application is linked and communicates with local and remote sequence and structure databases.
Friend是一款生物信息学应用程序，旨在同时分析和可视化蛋白质和/或DNA/RNA的多种结构与序列。该应用程序提供基本功能，如具有不同渲染和着色的结构可视化、序列比对和简单的系统发育分析，以及一些扩展功能，以对序列结构关系进行更复杂的分析，包括蛋白质的结构比对、特定相互作用基序的研究、蛋白质 - 蛋白质和蛋白质 - DNA相互作用以及蛋白质超家族的研究。它对于蛋白质的功能注释、蛋白质建模和蛋白质折叠研究也很有用。Friend提供三种使用级别：（1）为没有编程经验的科学家提供的广泛图形用户界面；（2）为有一定编程经验的科学家提供的用于脚本编写的命令行界面；（3）为有经验的程序员提供的使用用户编写的库扩展Friend的能力。该应用程序与本地和远程序列及结构数据库链接并通信。
