Mall Tarun, Eckstein John, Norris David, Vora Hiral, Freese Nowlan H, Loraine Ann E
Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA.
Bioinformatics. 2016 Aug 15;32(16):2499-501. doi: 10.1093/bioinformatics/btw068. Epub 2016 Apr 7.
One gene can produce multiple transcript variants encoding proteins with different functions. To facilitate visual analysis of transcript variants, we developed ProtAnnot, which shows protein annotations in the context of genomic sequence. ProtAnnot searches InterPro and displays profile matches (protein annotations) alongside gene models, exposing how alternative promoters, splicing and 3' end processing add, remove, or remodel functional motifs. To draw attention to these effects, ProtAnnot color-codes exons by frame and displays a cityscape graphic summarizing exonic sequence at each position. These techniques make visual analysis of alternative transcripts faster and more convenient for biologists.
ProtAnnot is a plug-in App for Integrated Genome Browser, an open source desktop genome browser available from http://www.bioviz.org
一个基因可以产生多种转录变体，编码具有不同功能的蛋白质。为便于对转录变体进行可视化分析，我们开发了ProtAnnot，它能在基因组序列背景下展示蛋白质注释。ProtAnnot搜索InterPro，并在基因模型旁显示轮廓匹配（蛋白质注释），揭示可变启动子、剪接和3'端加工如何添加、去除或重塑功能基序。为引起对这些效应的关注，ProtAnnot按读框对外显子进行颜色编码，并显示一个城市景观图，总结每个位置的外显子序列。这些技术使生物学家对可变转录本的可视化分析更快、更便捷。
ProtAnnot是用于综合基因组浏览器的插件应用程序，综合基因组浏览器是一款开源桌面基因组浏览器，可从http://www.bioviz.org获取。
Zotero 插件