منابع مشابه
RNA Shape Space Topology
The distinction between continuous and discontinuous transitions is a long-standing problem in the theory of evolution. Because continuity is a topological property, we present a formalism that treats the space of phenotypes as a (finite) topological space, with a topology that is derived from the probabilities with which one phenotype is accessible from another through changes at the genotypic...
متن کاملTopology of RNA-RNA Interaction Structures
The topological filtration of interacting RNA complexes is studied, and the role is analyzed of certain diagrams called irreducible shadows, which form suitable building blocks for more general structures. We prove that, for two interacting RNAs, called interaction structures, there exist for fixed genus only finitely many irreducible shadows. This implies that, for fixed genus, there are only ...
متن کاملRNA topology remolds electrostatic stabilization of viruses.
Simple RNA viruses efficiently encapsulate their genome into a nano-sized protein shell: the capsid. Spontaneous coassembly of the genome and the capsid proteins is driven predominantly by electrostatic interactions between the negatively charged RNA and the positively charged inner capsid wall. Using field theoretic formulation we show that the inherently branched RNA secondary structure allow...
متن کاملAddendum: topology and prediction of RNA pseudoknots
Addendum: topology and prediction of RNA pseudoknots Christian M. Reidys1,∗, Fenix W. D. Huang1, Jørgen E. Andersen2, Robert C. Penner2,3,4, Peter F. Stadler5 and Markus E. Nebel6 1Department of Mathematics and Computer Science, University of Southern Denmark, 2Department of Mathematics and Computer Science, Center for Quantum Geometry of Moduli Spaces, Aarhus University, Århus C, Odense, Denma...
متن کاملTopology and prediction of RNA pseudoknots
MOTIVATION Several dynamic programming algorithms for predicting RNA structures with pseudoknots have been proposed that differ dramatically from one another in the classes of structures considered. RESULTS Here, we use the natural topological classification of RNA structures in terms of irreducible components that are embeddable in the surfaces of fixed genus. We add to the conventional seco...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Artificial DNA: PNA & XNA
سال: 2013
ISSN: 1949-095X,1949-0968
DOI: 10.4161/adna.24680