A phase transition for the minimum free energy of secondary structures of a random RNA

DOI10.1006/AAMA.1996.0502MaRDI QIDQ675899zbMATH OpenOpenAlexFDO

Authors Momiao Xiong, Michael S. Waterman

Publication date 11 March 1997

Published in Advances in Applied Mathematics (Search for Journal in Brave)

Full work available at URL https://semanticscholar.org/paper/abc1eeb14b910accbedc64963318a39844af6844

zbMATH Keywords

phase transitionbulgesfree energydistributional propertiesPoisson approximationloopslinear growthlogarithmic growthminimum free energybasepairsrandom RNA secondary structuresingle-stranded RNA

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Stochastic processes (60G99)

Recommendations

• Asymptotic expected number of base pairs in optimal secondary structure for random RNA using the Nussinov--Jacobson energy model
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Cites work

• scientific article; zbMATH DE number 53883 (Why is no real title available?)
• A Poisson approximation for sequence comparisons with insertions and deletions
• A limit theorem for matching random sequences allowing deletions
• A phase transition for the score in matching random sequences allowing deletions
• Algorithms for Loop Matchings
• An Erdős-Rényi law with shifts
• Critical phenomena in sequence matching
• Limit distributions of maximal segmental score among Markov-dependent partial sums
• Maximal length of common words among random letter sequences
• RNA secondary structure: a complete mathematical analysis
• RNA secondary structures and their prediction
• Rapid and accurate estimates of statistical significance for sequence data base searches.
• Rapid dynamic programming algorithms for RNA secondary structure
• Sequence comparison significance and Poisson approximation
• Simultaneous Solution of the RNA Folding, Alignment and Protosequence Problems
• The Erdős-Rényi law in distribution, for coin tossing and sequence matching
• Two moments suffice for Poisson approximations: The Chen-Stein method

Cited in

(6)

• Loop entropy assists tertiary order: loopy stabilization of stacking motifs
• Asymptotics for local maximal stack scores with general loop penalty function
• Arrhenius lifetimes of RNA structures from free energy landscapes
• Random words in free groups, non-crossing matchings and RNA secondary structures
• Barrier heights between ground states in a model of RNA secondary structure
• Information generation and the loss of conformational entropy during RNA folding

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