The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs.
The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs.
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DOI：
10.1093/nar/gki366
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发表时间：
2005-07-01
影响因子：
14.9
通讯作者：
Lowe TM
中科院分区：
文献类型：
--
作者：
Schattner P;Brooks AN;Lowe TM
转运RNA（transfer RNA，tRNA）和核仁小RNA（small nucleolar RNA，snoRNA）是非蛋白质编码RNA中最大的两类。传统的基因发现仪检测蛋白质编码基因，但无法发现tRNA和snoRNA基因，因为它们缺乏蛋白质编码基因的密码子结构和统计特征。在此之前，我们开发了tRNAscan-SE，snoscan和snoGPS分别用于检测tRNA，甲基化指导snoRNA和假尿苷化指导snoRNA。tRNAscan-SE通常应用于完整的基因组，导致数千个tRNA基因的鉴定。Snoscan已经成功地在多种真核生物和古细菌中检测到甲基化指导snoRNA，snoGPS已经在酵母和哺乳动物中鉴定出新型的假尿苷化指导snoRNA。虽然这些程序在RNA基因检测方面已经相当成功，但它们的使用受到了在UNIX工作站上安装和配置软件包的需要的限制。在这里，我们描述了这些RNA检测工具的在线实现，使这些程序可供更广泛的研究生物学家使用。tRNAscan-SE、snoscan和snoGPS服务器分别位于和。
Transfer RNAs (tRNAs) and small nucleolar RNAs (snoRNAs) are two of the largest classes of non-protein-coding RNAs. Conventional gene finders that detect protein-coding genes do not find tRNA and snoRNA genes because they lack the codon structure and statistical signatures of protein-coding genes. Previously, we developed tRNAscan-SE, snoscan and snoGPS for the detection of tRNAs, methylation-guide snoRNAs and pseudouridylation-guide snoRNAs, respectively. tRNAscan-SE is routinely applied to completed genomes, resulting in the identification of thousands of tRNA genes. Snoscan has successfully detected methylation-guide snoRNAs in a variety of eukaryotes and archaea, and snoGPS has identified novel pseudouridylation-guide snoRNAs in yeast and mammals. Although these programs have been quite successful at RNA gene detection, their use has been limited by the need to install and configure the software packages on UNIX workstations. Here, we describe online implementations of these RNA detection tools that make these programs accessible to a wider range of research biologists. The tRNAscan-SE, snoscan and snoGPS servers are available at , and , respectively.
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影响因子：
14.9
作者：
Schattner, P;Decatur, WA;Lowe, TM
通讯作者：
Lowe, TM
影响因子：
14.9
作者：
EDDY, SR;DURBIN, R
通讯作者：
DURBIN, R
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14.9
作者：
PAVESI, A;CONTERIO, F;OTTONELLO, S
通讯作者：
OTTONELLO, S
影响因子：
5.8
作者：
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Furia, M
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14.9
作者：
Brown, JWS;Echeverria, M;Marshall, DF
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Marshall, DF