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» Topology and prediction of RNA pseudoknots
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IPPS
2007
IEEE
13 years 11 months ago
RNAVLab: A unified environment for computational RNA structure analysis based on grid computing technology
Ribonucleic acid (RNA) molecules play important roles in many biological processes including gene expression and regulation. An RNA molecule is a linear polymer which folds back o...
Michela Taufer, Ming-Ying Leung, Kyle L. Johnson, ...
JCB
2007
136views more  JCB 2007»
13 years 5 months ago
A Structure-Based Flexible Search Method for Motifs in RNA
The discovery of non-coding RNA (ncRNA) motifs and their role in regulating gene expression has recently attracted considerable attention. The goal is to discover these motifs in ...
Isana Veksler-Lublinsky, Michal Ziv-Ukelson, Danny...
IPPS
2008
IEEE
13 years 11 months ago
On the Effectiveness of Rebuilding RNA Secondary Structures from Sequence Chunks
Despite the computing power of emerging technologies, predicting long RNA secondary structures with thermodynamics-based methods is still infeasible, especially if the structures ...
Michela Taufer, Thamar Solorio, Abel Licon, David ...
BMCBI
2008
116views more  BMCBI 2008»
13 years 5 months ago
A novel representation of RNA secondary structure based on element-contact graphs
Background: Depending on their specific structures, noncoding RNAs (ncRNAs) play important roles in many biological processes. Interest in developing new topological indices based...
Wenjie Shu, Xiaochen Bo, Zhiqiang Zheng, Shengqi W...
BMCBI
2011
12 years 8 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 structur...
Joseph A. Izzo, Namhee Kim, Shereef Elmetwaly, Tam...