Simple fast algorithms for the editing distance between trees and related problems
SIAM Journal on Computing
TAPSOFT '91 Proceedings of the international joint conference on theory and practice of software development on Colloquium on trees in algebra and programming (CAAP '91): vol 1
Linear trees and RNA secondary structure
Discrete Applied Mathematics
Algorithms on strings, trees, and sequences: computer science and computational biology
Algorithms on strings, trees, and sequences: computer science and computational biology
The String-to-String Correction Problem
Journal of the ACM (JACM)
The Tree-to-Tree Correction Problem
Journal of the ACM (JACM)
Alignment of Trees - An Alternative to Tree Edit
CPM '94 Proceedings of the 5th Annual Symposium on Combinatorial Pattern Matching
Pure Multiple RNA Secondary Structure Alignments: A Progressive Profile Approach
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
An algebraic view of the relation between largest common subtrees and smallest common supertrees
Theoretical Computer Science
Local similarity between quotiented ordered trees
Journal of Discrete Algorithms
Comparing similar ordered trees in linear-time
Journal of Discrete Algorithms
Learning probabilistic models of tree edit distance
Pattern Recognition
A linear tree edit distance algorithm for similar ordered trees
CPM'05 Proceedings of the 16th annual conference on Combinatorial Pattern Matching
Indexing for subtree similarity-search using edit distance
Proceedings of the 2013 ACM SIGMOD International Conference on Management of Data
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We are interested in RNA secondary structure comparison, using an approach which consists to represent these structures by labeled ordered trees. Following the problem considered, this tree representation can be rough (considering only the structural patterns), or refined until an exact coding of the structure is obtained. After some preliminary definitions and the description of the Zhang-Shasha (SIAM J. Comput. 18 (6) (1989) 1245) tree edit algorithm, which is on the one hand the reference when dealing with ordered labeled trees comparison, and on the other hand the starting point of our work, this article will present an exact analysis of its complexity. The purpose of this work is also to lead us to a better comprehension of the parameters of this algorithm, in order to be able to modify it more easily without changing its time complexity to take into account biological constraints that occur when comparing RNA secondary structures.