Investigation of the Bernoulli model for RNA secondary structures
Investigation of the Bernoulli model for RNA secondary structures
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DOI：
10.1016/j.bulm.2003.08.015
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发表时间：
2004-09-01
影响因子：
3.5
通讯作者：
Nebel, ME
中科院分区：
文献类型：
--
作者：
Nebel, ME
本文研究了核糖核酸分子随机二级结构的Bernoulli模型。假设两个随机碱基可以以概率p形成氢键，我们证明了发夹和凸起的平均数，平均环长，预期的顺序，大小为n和顺序为k的二级结构的预期数量和其他参数都取决于p的渐近等价。然后，我们将Bernoulli模型中随机结构的计算参数与Wuyts等人数据库中发现的大亚基rRNA分子的真实的现有二级结构的相应数量进行比较。这就是如何识别那些行为（几乎）随机的参数和那些不随机的参数，因此应该被认为是有趣的，例如，在生物学功能或RNA二级结构的算法预测方面。(C)2003年，数学生物学。由爱思唯尔有限公司出版。保留所有权利。
Within this paper we investigate the Bernoulli model for random secondary structures of ribonucleic acid (RNA) molecules. Assuming that two random bases can form a hydrogen bond with probability p we prove asymptotic equivalents for the averaged number of hairpins and bulges, the averaged loop length, the expected order, the expected number of secondary structures of size n and order k and further parameters all depending on p. In this way we get an insight into the change of shape of a random structure during the process 1 -->(p) 0. Afterwards we compare the computed parameters for random structures in the Bernoulli model to the corresponding quantities for real existing secondary structures of large subunit rRNA molecules found in the database of Wuyts et al. That is how it becomes possible to identify those parameters which behave (almost) randomly and those which do not and thus should be considered as interesting, e.g., with respect to the biological functions or the algorithmic prediction of RNA secondary structures. (C) 2003 Society for Mathematical Biology. Published by Elsevier Ltd. All rights reserved.