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» Rich Parameterization Improves RNA Structure Prediction
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BMCBI
2008
244views more  BMCBI 2008»
13 years 11 months ago
RNAalifold: improved consensus structure prediction for RNA alignments
Background: The prediction of a consensus structure for a set of related RNAs is an important first step for subsequent analyses. RNAalifold, which computes the minimum energy str...
Stephan H. F. Bernhart, Ivo L. Hofacker, Sebastian...
BIOINFORMATICS
2008
126views more  BIOINFORMATICS 2008»
13 years 11 months ago
FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space
Xiang Chen, Simin He, Dongbo Bu, Fa Zhang, Zhiyong...
RECOMB
2006
Springer
14 years 11 months ago
RNA Secondary Structure Prediction Via Energy Density Minimization
Abstract. There is a resurgence of interest in RNA secondary structure prediction problem (a.k.a. the RNA folding problem) due to the discovery of many new families of non-coding R...
Can Alkan, Emre Karakoç, Süleyman Cenk...
JCO
2007
149views more  JCO 2007»
13 years 10 months ago
A 2-approximation for the preceding-and-crossing structured 2-interval pattern problem
The 2-interval pattern problem over its various models and restrictions was proposed by Vialette (2004) for the application of RNA secondary structure prediction. We present an O(n...
Minghui Jiang
BMCBI
2006
158views more  BMCBI 2006»
13 years 10 months ago
Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change
Background: Non-coding RNAs (ncRNAs) have a multitude of roles in the cell, many of which remain to be discovered. However, it is difficult to detect novel ncRNAs in biochemical s...
Andrew V. Uzilov, Joshua M. Keegan, David H. Mathe...