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2011

RAG: An Update to the RNA-As-Graphs Resource

8 years 10 months ago
RAG: An Update to the RNA-As-Graphs Resource
Background: In 2004, we presented a web resource for stimulating the search for novel RNAs, RNA-As-Graphs (RAG), which classified, catalogued, and predicted RNA secondary structure motifs using clustering and build-up approaches. With the increased availability of secondary structures in recent years, we update the RAG resource and provide various improvements for analyzing RNA structures. Description: Our RAG update includes a new supervised clustering algorithm that can suggest RNA motifs that may be “RNA-like”. We use this utility to describe RNA motifs as three classes: existing, RNA-like, and non-RNA-like. This produces 126 tree and 16,658 dual graphs as candidate RNA-like topologies using the supervised clustering algorithm with existing RNAs serving as the training data. A comparison of this clustering approach to an earlier method shows considerable improvements. Additional RAG features include greatly expanded search capabilities, an interface to better utilize the benefi...
Joseph A. Izzo, Namhee Kim, Shereef Elmetwaly, Tam
Added 24 Aug 2011
Updated 24 Aug 2011
Type Journal
Year 2011
Where BMCBI
Authors Joseph A. Izzo, Namhee Kim, Shereef Elmetwaly, Tamar Schlick
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