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The block spectrum of RNA pseudoknot structures
Thomas J. X. Li, Christina S. Burris, Christian M. Reidys
In this paper we analyze the length-spectrum of blocks in -structures. -structures are a class of RNA pseudoknot structures that plays a key role in the context of polynomial…
The rainbow-spectrum of RNA secondary structures
Thomas J. X. Li, Christian M. Reidys
In this paper we analyze the length-spectrum of rainbows in RNA secondary structures. A rainbow in a secondary structure is a maximal arc with respect to the partial order induced…
From unicellular fatgraphs to trees
Thomas J. X. Li, Christian M. Reidys
In this paper we study the minimum number of reversals needed to transform a unicellular fatgraph into a tree. We consider reversals acting on boundary components, having the natur…
Statistics of topological RNA structures
Thomas J. X. Li, Christian M. Reidys
In this paper we study properties of topological RNA structures, i.e.~RNA contact structures with cross-serial interactions that are filtered by their topological genus. RNA second…
RNA secondary structures having a compatible sequence of certain nucleotide ratios
Christopher L. Barrett, Thomas J. X. Li, Christian M. Reidys
Given a random RNA secondary structure, , we study RNA sequences having fixed ratios of nuclotides that are compatible with . We perform this analysis for RNA secondary struc…