ArticleNucleic acids research2006
RNAMST: efficient and flexible approach for identifying RNA structural homologs.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- RNA motif search with data-driven element ordering.BMC bioinformatics · 2016Article
- Web-Beagle: a web server for the alignment of RNA secondary structures.Nucleic acids research · 2015Article
- A novel approach to represent and compare RNA secondary structures.Nucleic acids research · 2014Article
- Detecting and comparing non-coding RNAs in the high-throughput era.International journal of molecular sciences · 2013Review
- Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns.BMC bioinformatics · 2013Article
- Structator: fast index-based search for RNA sequence-structure patterns.BMC bioinformatics · 2011Article
- Informatic resources for identifying and annotating structural RNA motifs.Molecular biotechnology · 2009Review
- From knotted to nested RNA structures: a variety of computational methods for pseudoknot removal.RNA (New York, N.Y.) · 2008Article
- RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures.Nucleic acids research · 2008Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA molecules fold into characteristic secondary structures for their diverse functional activities such as post-translational regulation of gene expression. Searching homologs of a pre-defined RNA structural motif, which may be a known functional element or a putative RNA structural motif, can provide useful information for deciphering RNA regulatory mechanisms. Since searching for the RNA structural homologs among the numerous RNA sequences is extremely time-consuming, this work develops a data preprocessing strategy to enhance the search efficiency and presents RNAMST, which is an efficient and flexible web server for rapidly identifying homologs of a pre-defined RNA structural motif among numerous RNA sequences. Intuitive user interface are provided on the web server to facilitate the predictive analysis. By comparing the proposed web server to other tools developed previously, RNAMST performs remarkably more efficiently and provides more effective and flexible functions. RNAMST is now available on the web at http://bioinfo.csie.ncu.edu.tw/~rnamst/.
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