Recode-2: new design, new search tools, and many more genes
Recode-2: new design, new search tools, and many more genes
复制标题
DOI：
10.1093/nar/gkp788
复制
发表时间：
2010-01-01
影响因子：
14.9
通讯作者：
Baranov, Pavel V.
中科院分区：
文献类型：
--
作者：
Bekaert, Michael;Firth, Andrew E.;Baranov, Pavel V.
“转录”是用于描述遗传密码的非标准读出的术语，并且包括诸如程序性核糖体移码、终止密码子通读、硒代半胱氨酸插入和翻译旁路的现象。虽然只有一小部分基因在蛋白质合成中利用重新编码，但“重新编码”基因的准确注释远远落后于“标准”基因的注释。为了解决这个问题，为该领域的研究人员提供服务，并为基因注释软件的开发人员提供培训数据，我们收集了Recode数据库中已知的重新编码案例。Recode-2是数据库的改进和更新版本。它提供了对已知利用翻译重编码的基因的详细信息的访问，并允许复杂的搜索查询，重编码数据的浏览和注释序列元素的增强的可视化。目前，Recode-2数据库存储了大约1500个基因的信息，这些基因已知在其表达中利用重新编码，这比以前版本的数据库增加了大约3倍。Recode-2可在http://recode.ucc.ie上获得
'Recoding' is a term used to describe non-standard read-out of the genetic code, and encompasses such phenomena as programmed ribosomal frame-shifting, stop codon readthrough, selenocysteine insertion and translational bypassing. Although only a small proportion of genes utilize recoding in protein synthesis, accurate annotation of 'recoded' genes lags far behind annotation of 'standard' genes. In order to address this issue, provide a service to researchers in the field, and offer training data for developers of gene-annotation software, we have gathered together known cases of recoding within the Recode database. Recode-2 is an improved and updated version of the database. It provides access to detailed information on genes known to utilize translational recoding and allows complex search queries, browsing of recoding data and enhanced visualization of annotated sequence elements. At present, the Recode-2 database stores information on approximately 1500 genes that are known to utilize recoding in their expression-a factor of approximately three increase over the previous version of the database. Recode-2 is available at http://recode.ucc.ie