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BMCBI
2007
143views more  BMCBI 2007»
14 years 10 months ago
RNAspa: a shortest path approach for comparative prediction of the secondary structure of ncRNA molecules
Background: In recent years, RNA molecules that are not translated into proteins (ncRNAs) have drawn a great deal of attention, as they were shown to be involved in many cellular ...
Yair Horesh, Tirza Doniger, Shulamit Michaeli, Ron...
ISBRA
2007
Springer
15 years 4 months ago
Delta: A Toolset for the Structural Analysis of Biological Sequences on a 3D Triangular Lattice
Abstract. The lattice approach to biological structural analysis was made popular by the HP model for protein folding, but had not been used previously for RNA secondary structure ...
Minghui Jiang, Martin Mayne, Joel Gillespie
JCO
2007
149views more  JCO 2007»
14 years 9 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
2002
108views more  BMCBI 2002»
14 years 9 months ago
A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...
Sean R. Eddy
NAR
2002
156views more  NAR 2002»
14 years 9 months ago
NCIR: a database of non-canonical interactions in known RNA structures
The secondary and tertiary structure of an RNA molecule typically includes a number of non-canonical base
Uma Nagaswamy, Maia Larios-Sanz, James Hury, Shaka...