The RDP-II (Ribosomal Database Project)
The RDP-II (Ribosomal Database Project)
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DOI：
10.1093/nar/29.1.173
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发表时间：
2001-01-01
影响因子：
14.9
通讯作者：
Tiedje, JM
中科院分区：
文献类型：
--
作者：
Maidak, BL;Cole, JR;Tiedje, JM
先前由Maidak等人[Nucleic Acids Res.（2000），28，173-174]描述的核糖体数据库计划（RDP-II）在过去一年中继续向比对数据添加新的rRNA序列并改进分析命令。Release 8.0（2000年6月1日）由16 277个对齐的原核小亚基（SSU）rRNA序列组成，白色，对齐形式的真核和线粒体SSU rRNA序列的数量分别保持在2055和1503。原核SSU rRNA序列的数量比14个月前的上一次发布增加了一倍多，并且类似于75%的长度超过899 bp。现已在日本建立了RDP-II镜像网站（http：//wdcm.nig.ac.jp/RDP/html/index.html）。RDP-II通过其WWW服务器（http：//rdp.cme.msu.edul）提供比对和注释的rRNA序列、衍生的系统发育树和分类层次以及分析服务。分析服务包括rRNA探针检查、用户序列的近似系统发育位置、筛选可能的嵌合rRNA序列的用户序列、自动比对、相似性矩阵的产生以及计划和分析末端限制性片段多态性实验的服务。RDP-II问题和评论的电子邮件地址已从curator@cme.msu.edu改为rdpstaff@msu.edu。
The Ribosomal Database Project (RDP-II), previously described by Maidak ef al. [Nucleic Acids Res. (2000), 28, 173-174], continued during the past year to add new rRNA sequences to the aligned data and to improve the analysis commands. Release 8.0 (June 1, 2000) consisted of 16 277 aligned prokaryotic small subunit (SSU) rRNA sequences white the number of eukaryotic and mitochondrial SSU rRNA sequences in aligned form remained at 2055 and 1503, respectively. The number of prokaryotic SSU rRNA sequences more than doubled from the previous release 14 months earlier, and similar to 75% are longer than 899 bp. An RDP-II mirror site in Japan is now available (http:// wdcm.nig.ac.jp/RDP/html/index.html). RDP-II provides aligned and annotated rRNA sequences, derived phylogenetic trees and taxonomic hierarchies, and analysis services through its WWW sewer (http:// rdp.cme.msu.edul). Analysis services include rRNA probe checking, approximate phylogenetic placement of user sequences, screening user sequences for possible chimeric rRNA sequences, automated alignment, production of similarity matrices and services to plan and analyze terminal restriction fragment polymorphism experiments. The RDP-II email address for questions and comments has been changed from curator@cme.msu.edu to rdpstaff@msu.edu.