Document Detail


Combinatorics of RNA structures with pseudoknots.
MedLine Citation:
PMID:  17896159     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
In this paper, we derive the generating function of RNA structures with pseudoknots. We enumerate all k-noncrossing RNA pseudoknot structures categorized by their maximal sets of mutually intersecting arcs. In addition, we enumerate pseudoknot structures over circular RNA. For 3-noncrossing RNA structures and RNA secondary structures we present a novel 4-term recursion formula and a 2-term recursion, respectively. Furthermore, we enumerate for arbitrary k all k-noncrossing, restricted RNA structures i.e. k-noncrossing RNA structures without 2-arcs i.e. arcs of the form (i,i+2), for 1< or =i< or =n-2.
Authors:
Emma Y Jin; Jing Qin; Christian M Reidys
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2007-09-26
Journal Detail:
Title:  Bulletin of mathematical biology     Volume:  70     ISSN:  0092-8240     ISO Abbreviation:  Bull. Math. Biol.     Publication Date:  2008 Jan 
Date Detail:
Created Date:  2008-01-08     Completed Date:  2008-04-29     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  0401404     Medline TA:  Bull Math Biol     Country:  United States    
Other Details:
Languages:  eng     Pagination:  45-67     Citation Subset:  IM    
Affiliation:
Center for Combinatorics, LMPC-TJKLC, Nankai University, Tianjin 300071, China.
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MeSH Terms
Descriptor/Qualifier:
Models, Chemical*
Models, Molecular
Nucleic Acid Conformation*
RNA / chemistry*
Chemical
Reg. No./Substance:
63231-63-0/RNA

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