ARK-Genomics, The Roslin Institute and R(D)SVS, University of Edinburgh Easter Bush, Midlothian, UK.
Front Genet. 2013 Sep 5;4:168. doi: 10.3389/fgene.2013.00168. eCollection 2013.
Whole-genome shotgun metagenomics experiments produce DNA sequence data from entire ecosystems, and provide a huge amount of novel information. Gene discovery projects require up-to-date information about sequence homology and domain structure for millions of predicted proteins to be presented in a simple, easy-to-use system. There is a lack of simple, open, flexible tools that allow the rapid sharing of metagenomics datasets with collaborators in a format they can easily interrogate. We present Meta4, a flexible and extensible web application that can be used to share and annotate metagenomic gene predictions. Proteins and predicted domains are stored in a simple relational database, with a dynamic front-end which displays the results in an internet browser. Web services are used to provide up-to-date information about the proteins from homology searches against public databases. Information about Meta4 can be found on the project website, code is available on Github, a cloud image is available, and an example implementation can be seen at.
全基因组鸟枪法宏基因组学实验从整个生态系统中产生 DNA 序列数据，并提供了大量新的信息。基因发现项目需要最新的序列同源性和结构域信息，以便在一个简单易用的系统中呈现数以百万计的预测蛋白。目前缺乏简单、开放、灵活的工具，无法以合作者易于查询的格式快速共享宏基因组数据集。我们提出了 Meta4，这是一个灵活且可扩展的 Web 应用程序，可用于共享和注释宏基因组基因预测。蛋白质和预测结构域存储在一个简单的关系数据库中，带有一个动态前端，可在 Internet 浏览器中显示结果。Web 服务用于提供来自公共数据库的同源性搜索的蛋白质的最新信息。有关 Meta4 的信息可以在项目网站上找到，代码可在 Github 上获得，云映像可用，示例实现可在 上查看。
