Zero-temperature properties of RNA secondary structures
نویسندگان
چکیده
منابع مشابه
RNA Secondary Structures
The central dogma of molecular biology states that the flow of information is from DNA, through RNA, to proteins. What this means is that DNA is the storage medium of genomic information, while proteins are the molecules with functional and structural rôles. In this view, RNA is mostly considered a ‘supporting actor’, being the medium used for transporting information from storage to where it i...
متن کاملStatistics of RNA secondary structures.
A statistical reference for RNA secondary structures with minimum free energies is computed by folding large ensembles of random RNA sequences. Four nucleotide alphabets are used: two binary alphabets, AU and GC, the biophysical AUGC and the synthetic GCXK alphabet. RNA secondary structures are made of structural elements, such as stacks, loops, joints, and free ends. Statistical properties of ...
متن کاملCombinatorics of RNA Secondary Structures
Secondary structures of polynucleotides can be view as a certain class of planar vertex-labeled graphs. We construct recursion formulae enumerating various sub-classes of these graphs as well as certain structural elements (sub-graphs). First order asymptotics are derived and their dependence on the logic of base pairing is computed and discussed.
متن کاملSpaces of RNA Secondary Structures
We prove two topological theorems in physical chemistry. Namely, we introduce a hybrid of transverse and tangential measures on train tracks to prove sphericity of various simplicial complexes which arise from certain idealized models of physical chemistry. These complexes are at once identified with Thurston’s space of projective geodesic laminations on an ideal polygon and with the analogue o...
متن کاملK-Partite RNA Secondary Structures
RNA secondary structure prediction is a fundamental problem in structural bioinformatics. The prediction problem is difficult because RNA secondary structures may contain pseudoknots formed by crossing base pairs. We introduce k-partite secondary structures as a simple classification of RNA secondary structures with pseudoknots. An RNA secondary structure is k-partite if it is the union of k ps...
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ژورنال
عنوان ژورنال: Physical Review E
سال: 2002
ISSN: 1063-651X,1095-3787
DOI: 10.1103/physreve.65.041919