In the realm of nucleic acid structures, secondary structure forms a conceptually important
intermediate level of description and explains the dominating part of the free energy of …

Developers of high-performance algorithms for hard computational problems increasingly
take advantage of automated parameter tuning and algorithm configuration tools, and …

Teichmüller theory succeeds in describing and classifying geometric structures on surfaces.
It was born in the work of O. Teichmüller using techniques of complex analysis [2],[65] and …

In this review paper we discuss fatgraphs as a conceptual framework for RNA structures. We
discuss various notions of coarse-grained RNA structures and relate them to fatgraphs. We …

Motivation: The function of an RNA molecule is not only linked to its native structure, which is
usually taken to be the ground state of its folding landscape, but also in many cases crucially …

To an RNA pseudoknot structure is naturally associated a topological surface, which has its
associated genus, and structures can thus be classified by the genus. Based on earlier work …

An essential quantity to ensure evolvability of populations is the navigability of the genotype
space. Navigability, understood as the ease with which alternative phenotypes are reached …

All possible phenotypes are not equally accessible to evolving populations. In fact, only
phenotypes of large size, ie those resulting from many different genotypes, are found in …

We introduce and study the Hermitian matrix model with potential Vs, t (x)= x2/2− stx/(1− tx),
which enumerates the number of linear chord diagrams with no isolated vertices of fixed …

The interaction of discrete mathematics with molecular biology advances our understanding
of important sequence/structure/function relationships. By their nature, biological sequences …