Classifying RNA pseudoknotted structures

DOI10.1016/J.TCS.2004.03.042zbMATH Open1043.92008OpenAlexW2013195357MaRDI QIDQ596125FDOQ596125

Authors: Anne Condon, Beth Davy, Baharak Rastegari, Shelly Zhao, Finbarr Tarrant 

Publication date: 10 August 2004

Published in: Theoretical Computer Science (Search for Journal in Brave)

Full work available at URL: https://eprints.soton.ac.uk/426392/1/1_s2.0_S0304397504001938_main.pdf

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zbMATH Keywords

RNA secondary structureClassification of structuresPseudoknots

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Computational methods for problems pertaining to biology (92-08) Biophysics (92C05)

Cites Work

• Tree adjoining grammars for RNA structure prediction
• Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots

Cited In (15)

• Predicting RNA secondary structures with pseudoknots by MCMC sampling
• A new method for prediction of RNA secondary structure with pseudoknots, based on helix removal and refinement
• Algebraic dynamic programming for multiple context-free grammars
• Posets and spaces of \(k\)-noncrossing RNA structures
• An RNA secondary structure prediction method based on minimum and suboptimal free energy structures
• A grammatical approach to RNA-RNA interaction prediction
• Prediction for RNA planar pseudoknots
• Properties of RNA secondary structure matching models
• Comparing two \(K\)-category assignments by a \(K\)-category correlation coefficient
• Automata, Languages and Programming
• Pseudoknot-generating operation
• A graphical criterion of planarity for RNA secondary structures with pseudoknots in Rivas-Eddy class
• Combinatorial design of pseudoknot RNA
• Counting RNA pseudoknotted structures (extended abstract)
• Fatgraph models of RNA structure

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