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BMCBI
2007
109views more  BMCBI 2007»
13 years 4 months ago
Computational RNA secondary structure design: empirical complexity and improved methods
Background: We investigate the empirical complexity of the RNA secondary structure design problem, that is, the scaling of the typical difficulty of the design task for various cl...
Rosalía Aguirre-Hernández, Holger H....
BMCBI
2005
306views more  BMCBI 2005»
13 years 4 months ago
A method for aligning RNA secondary structures and its application to RNA motif detection
Background: Alignment of RNA secondary structures is important in studying functional RNA motifs. In recent years, much progress has been made in RNA motif finding and structure a...
Jianghui Liu, Jason Tsong-Li Wang, Jun Hu, Bin Tia...
CIBCB
2009
IEEE
13 years 5 months ago
rnaDesign: Local search for RNA secondary structure design
Abstract-- The RNA secondary structure design (SSD) problem is a recently emerging research topic motivated by applications such as customized drug design and the self-assembly of ...
Denny C. Dai, Herbert H. Tsang, Kay C. Wiese
RECOMB
2006
Springer
14 years 5 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...
BMCBI
2007
153views more  BMCBI 2007»
13 years 4 months ago
Can Clustal-style progressive pairwise alignment of multiple sequences be used in RNA secondary structure prediction?
Background: In ribonucleic acid (RNA) molecules whose function depends on their final, folded three-dimensional shape (such as those in ribosomes or spliceosome complexes), the se...
Amelia B. Bellamy-Royds, Marcel Turcotte