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» Edit distance between two RNA structures
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JCB
2006
115views more  JCB 2006»
13 years 5 months ago
Designing an A* Algorithm for Calculating Edit Distance between Rooted-Unordered Trees
Tree structures are useful for describing and analyzing biological objects and processes. Consequently, there is a need to design metrics and algorithms to compare trees. A natura...
Yair Horesh, Ramit Mehr, Ron Unger
BMCBI
2010
95views more  BMCBI 2010»
13 years 5 months ago
Quantifying the relationship between sequence and three-dimensional structure conservation in RNA
Background: In recent years, the number of available RNA structures has rapidly grown reflecting the increased interest on RNA biology. Similarly to the studies carried out two de...
Emidio Capriotti, Marc A. Martí-Renom
DASFAA
2009
IEEE
136views Database» more  DASFAA 2009»
14 years 4 days ago
A Two-Tire Index Structure for Approximate String Matching with Block Moves
Many applications need to solve the problem of approximate string matching with block moves. It is an NP-Complete problem to compute block edit distance between two strings. Our go...
Bin Wang, Long Xie, Guoren Wang
BIOINFORMATICS
2011
12 years 12 months ago
All-atom knowledge-based potential for RNA structure prediction and assessment
Motivation: Over the recent years, the vision that RNA simply serves as information transfer molecule has dramatically changed. The study of the sequence/structure/function relati...
Emidio Capriotti, Tomás Norambuena, Marc A....
SPE
2008
91views more  SPE 2008»
13 years 5 months ago
A multiple layer model to compare RNA secondary structures
composed of various graphs linked together by relations of abstraction/refinement. The new structure is useful for representing information that can be described at t levels of abs...
Julien Allali, Marie-France Sagot