Mironov A A, Dyakonova L P, Kister A E
All-Union Institute of Genetics Selection of Industrial Microorganisms, Moscow, USSR.
J Biomol Struct Dyn. 1985 Feb;2(5):953-62. doi: 10.1080/07391102.1985.10507611.
A new approach to the prediction of secondary RNA structures based on the analysis of the kinetics of molecular self-organisation is proposed herein. The Markov process is used to describe structural reconstructions during secondary structure formation. This process is modelled by a Monte-Carlo method. Examples of the calculation by this method of the secondary structures kinetic ensemble are given. Distribution of time-dependent probabilities within the ensembles is obtained. An effective method for search for the equilibrium ensemble is also suggested. This method is based on the construction of a tree of all possible secondary structures of RNA. By ascribing a probability for each structure (according to its free energy) the Boltzmann equilibrium ensemble can be obtained.
本文提出了一种基于分子自组织动力学分析预测二级RNA结构的新方法。马尔可夫过程用于描述二级结构形成过程中的结构重构。该过程通过蒙特卡罗方法进行建模。给出了用此方法计算二级结构动力学系综的例子。得到了系综内时间相关概率的分布。还提出了一种寻找平衡系综的有效方法。该方法基于构建RNA所有可能二级结构的树。通过为每个结构赋予一个概率（根据其自由能），可以得到玻尔兹曼平衡系综。
