Properties of RNA secondary structure matching models

DOI10.2140/INVOLVE.2019.12.257zbMATH Open1403.92198OpenAlexW2897034997WikidataQ60692723 ScholiaQ60692723MaRDI QIDQ1624873FDOQ1624873

Manda Riehl, Michael Breunig, McKenzie Scanlan, Kyle Goryl, Hannah M. Lewis, Nicole Anderson

Publication date: 16 November 2018

Published in: Involve (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.2140/involve.2019.12.257

Recommendations

• Enumerating RNA structures, including pseudoknots of any topology
• Non-crossing matchings
• RNA pseudoknot structures with arc-length \(\geq 3\) and stack-length \(\geq \sigma \)
• Combinatorial design of pseudoknot RNA
• RNA structures with pseudo-knots: graph-theoretical, combinatorial, and statistical properties

zbMATH Keywords

perfect matchingscrossing numberRNA secondary structurepseudoknotnesting number

Mathematics Subject Classification ID

Applications of graph theory (05C90) Protein sequences, DNA sequences (92D20)

Cites Work

• The On-Line Encyclopedia of Integer Sequences
• Crossings and nestings of matchings and partitions
• Classifying RNA pseudoknotted structures
• A bijection between the set of nesting-similarity classes and L & P matchings

Cited In (4)

• Exact matching of RNA secondary structure patterns
• Mathematical and biological modelling of RNA secondary structure and its effects on gene expression
• Barrier heights between ground states in a model of RNA secondary structure
• Modelling molecular stability in the RNA world

Uses Software

• OEIS

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