Autocatalytic Sets and RNA Secondary Structure
نویسندگان
چکیده
منابع مشابه
Autocatalytic sets and boundaries
Autopoietic systems, chemotons, and autogens are models that aim to explain (the emergence of) life as a functionally closed and self-sustaining system. An essential element in these models is the notion of a boundary containing, maintaining, and being generated by an internal reaction network. The more general concept of collectively autocatalytic sets, formalized as RAF theory, does not expli...
متن کاملThe structure of autocatalytic sets: evolvability, enablement, and emergence.
This paper presents new results from a detailed study of the structure of autocatalytic sets. We show how autocatalytic sets can be decomposed into smaller autocatalytic subsets, and how these subsets can be identified and classified. We then argue how this has important consequences for the evolvability, enablement, and emergence of autocatalytic sets. We end with some speculation on how all t...
متن کاملAutocatalytic sets and biological specificity.
A universal feature of the biochemistry of any living system is that all the molecules and catalysts that are required for reactions of the system can be built up from an available food source by repeated application of reactions from within that system. RAF (reflexively autocatalytic and food-generated) theory provides a formal way to study such processes. Beginning with Kauffman's notion of "...
متن کاملRNA secondary structure design.
We consider the inverse-folding problem for RNA secondary structures: for a given (pseudo-knot-free) secondary structure we want to find a sequence that has a certain structure as its ground state. If such a sequence exists, the structure is called designable. We have implemented a branch-and-bound algorithm that is able to do an exhaustive search within the sequence space, i.e., gives an exact...
متن کاملRNA Secondary Structure Prediction.
In this unit, protocols are provided for predicting RNA secondary structure with the user-friendly RNAstructure desktop computer program and the RNAstructure Web server. The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted. Prediction of high-affinity oligonucleotide binding sites to a structured RNA target is also presented. © 2016 by Jo...
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: Journal of Molecular Evolution
سال: 2017
ISSN: 0022-2844,1432-1432
DOI: 10.1007/s00239-017-9787-7