Non-Coding RNA Analysis Using the Rfam Database.
Non-Coding RNA Analysis Using the Rfam Database.
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DOI：
10.1002/cpbi.51
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发表时间：
2018-06
影响因子：
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通讯作者：
Petrov AI
中科院分区：
文献类型：
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作者：
Kalvari I;Nawrocki EP;Argasinska J;Quinones-Olvera N;Finn RD;Bateman A;Petrov AI
RFAM是一个非编码RNA家族的数据库，其中每个家族都由多个序列比对，共识二级结构和协方差模型表示。 RFAM结合了基于手动和文献的策展以及定制的软件管道，将科学文献中发现的RNA家族的描述转换为计算模型，可用于注释以任何DNA或RNA序列的那些家族的RNA。在RFAM条目中封装在图形和补充信息文件中的有价值的研究输出，并可以通过RFAM网站访问。 RFAM生产的数据具有广泛的应用，从基因组注释到为算法开发提供训练集。该单元概述了如何搜索和浏览RFAM网站以及如何用RNA家族注释序列。 RFAM数据库可在http://rfam.org上免费获得。
Rfam is a database of non-coding RNA families in which each family is represented by a multiple sequence alignment, a consensus secondary structure, and a covariance model. Using a combination of manual and literature-based curation and a custom software pipeline, Rfam converts descriptions of RNA families found in the scientific literature into computational models that can be used to annotate RNAs belonging to those families in any DNA or RNA sequence. Valuable research outputs that are often locked up in figures and supplementary information files are encapsulated in Rfam entries and made accessible through the Rfam website. The data produced by Rfam have a broad application, from genome annotation to providing training sets for algorithm development. This unit provides an overview of how to search and navigate the Rfam website, and how to annotate sequences with RNA families. The Rfam database is freely available at http://rfam.org.