TREE GRAPHS OF RNA SECONDARY STRUCTURES AND THEIR COMPARISONS
TREE GRAPHS OF RNA SECONDARY STRUCTURES AND THEIR COMPARISONS
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DOI：
10.1016/0010-4809(89)90039-6
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发表时间：
1989-10-01
期刊：
影响因子：
--
通讯作者：
MAIZEL, JV
中科院分区：
文献类型：
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作者：
LE, SY;NUSSINOV, R;MAIZEL, JV
为了便于比较RNA二级结构，每个结构都表示为有序标记树。对于任何给定的RNA分子（序列），可以计算出产生一组树的几个交替的二级结构。经常出现的子树在这组树中搜索。然后选择共有结构基序并用于构建RNA的二级结构模型。考虑到RNA二级结构计算的困难，这个过程可能会显着提高我们的预测能力。此外，两个不同的RNA序列之间的二级结构的变化被描述为有序树的变换。树A从树B的可转移率定义为树A和树B的最大公共子树出现在树A中的比例。该方法用于人α 1珠蛋白前mRNA剪接机制的研究。在该研究中，模拟了两种试验性剪接机制A和B，其具有从α 1珠蛋白前mRNA切除内含子的不同顺序。讨论了二级结构的结构特征与人α 1球蛋白前体剪接途径中内含子切除顺序之间的可能关系。
To facilitate comparison of RNA secondary structures each structure is represented as an ordered labeled tree. Several alternate secondary structures yielding a set of trees can be computed for any given RNA molecule (sequence). Frequently recurring subtrees are searched in this set of trees. The consensus structure motifs are then selected and used to construct a secondary structure model of the RNA. Given the difficulties involved in RNA secondary structure calculations, this procedure may significantly improve our predictive capabilities. In addition, the change of secondary structures between two different RNA sequences is described as a transformation of ordered trees. The transferable ratio of tree A from tree B is defined as a proportion of the largest common subtrees in trees A and B occurring in tree A. The method is applied to the study of the mechanism of human .alpha.1 globin pre-mRNA splicing. In the study, two tentative splicing mechanisms, A and B, with different orders of intron excision from .alpha.1 globin pre-MRNA have been simulated. A possible relationship between the structural features of the secondary structures and the order of intron excision in the pathway of precursor splicing of human .alpha.1 globin is discussed.