Boutros Robin, Stokes Nicola, Bekaert Michaël, Teeling Emma C
UCD School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W209-13. doi: 10.1093/nar/gkp269. Epub 2009 Apr 28.
The UniPrime2 web server is a publicly available online resource which automatically designs large sets of universal primers when given a gene reference ID or Fasta sequence input by a user. UniPrime2 works by automatically retrieving and aligning homologous sequences from GenBank, identifying regions of conservation within the alignment, and generating suitable primers that can be used to amplify variable genomic regions. In essence, UniPrime2 is a suite of publicly available software packages (Blastn, T-Coffee, GramAlign, Primer3), which reduces the laborious process of primer design, by integrating these programs into a single software pipeline. Hence, UniPrime2 differs from previous primer design web services in that all steps are automated, linked, saved and phylogenetically delimited, only requiring a single user-defined gene reference ID or input sequence. We provide an overview of the web service and wet-laboratory validation of the primers generated. The system is freely accessible at: http://uniprime.batlab.eu. UniPrime2 is licenced under a Creative Commons Attribution Noncommercial-Share Alike 3.0 Licence.
UniPrime2网络服务器是一个公开可用的在线资源，当用户输入基因参考ID或Fasta序列时，它会自动设计大量通用引物。UniPrime2的工作原理是自动从GenBank检索并比对同源序列，识别比对中的保守区域，并生成可用于扩增可变基因组区域的合适引物。本质上，UniPrime2是一套公开可用的软件包（Blastn、T-Coffee、GramAlign、Primer3），通过将这些程序集成到一个软件管道中，减少了引物设计的繁琐过程。因此，UniPrime2与以前的引物设计网络服务不同，它的所有步骤都是自动化的、相互关联的、可保存的且在系统发育上有界定的，只需要一个用户定义的基因参考ID或输入序列。我们提供了该网络服务的概述以及对所生成引物的湿实验室验证。该系统可通过以下网址免费访问：http://uniprime.batlab.eu。UniPrime2根据知识共享署名非商业性共享相同3.0许可协议获得许可。
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