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Journal of Computational Biology
Article . 2014 . Peer-reviewed
License: Mary Ann Liebert TDM
Data sources: Crossref
https://dx.doi.org/10.48550/ar...
Article . 2011
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Article . 2014
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Combinatorics of γ -Structures

Authors: Han, Hillary Siwei; Li, Thomas Jiaxian; reidys, Christian;

Combinatorics of γ -Structures

Abstract

In this paper we study canonical $γ$-structures, a class of RNA pseudoknot structures that plays a key role in the context of polynomial time folding of RNA pseudoknot structures. A $γ$-structure is composed by specific building blocks, that have topological genus less than or equal to $γ$, where composition means concatenation and nesting of such blocks. Our main result is the derivation of the generating function of $γ$-structures via symbolic enumeration using so called irreducible shadows. We furthermore recursively compute the generating polynomials of irreducible shadows of genus $\le γ$. $γ$-structures are constructed via $γ$-matchings. For $1\le γ\le 10$, we compute Puiseux-expansions at the unique, dominant singularities, allowing us to derive simple asymptotic formulas for the number of $γ$-structures.

38 pages 9 figures

Country
Denmark
Related Organizations
Keywords

shape, γ-structure, 05A16, generating function, 05A15, 05A16, FOS: Mathematics, Nucleic Acid Conformation, RNA, RNA/chemistry, Combinatorics (math.CO), math.CO, 05A15, Algorithms, irreducible shadow

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
8
Average
Average
Top 10%
bronze
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