Network Theory Tools for RNA Modeling.
Network Theory Tools for RNA Modeling.
复制标题
DOI：
--
复制
发表时间：
2013-09
影响因子：
--
通讯作者：
Namhee Kim;L. Petingi;T. Schlick
中科院分区：
文献类型：
--
作者：
Namhee Kim;L. Petingi;T. Schlick
介绍了RNA分子研究中图论或网络理论工具的使用。通过使用顶点和边来定义RNA二级结构为树和对偶图，我们可以枚举，预测和设计RNA拓扑结构。图形连接性和相关的拉普拉斯特征值与RNA的生物学特性有关，有助于理解RNA基序，并通过计算设计构建各种RNA靶结构。重要的是，RNA的图论表示大大减少了构象空间的大小，因此简化了建模和预测任务。关于一般RNA设计、RNA假结的表示和三级结构预测仍然存在持续的挑战。因此，网络理论的发展可能有助于推进RNA生物学。
An introduction into the usage of graph or network theory tools for the study of RNA molecules is presented. By using vertices and edges to define RNA secondary structures as tree and dual graphs, we can enumerate, predict, and design RNA topologies. Graph connectivity and associated Laplacian eigenvalues relate to biological properties of RNA and help understand RNA motifs as well as build, by computational design, various RNA target structures. Importantly, graph theoretical representations of RNAs reduce drastically the conformational space size and therefore simplify modeling and prediction tasks. Ongoing challenges remain regarding general RNA design, representation of RNA pseudoknots, and tertiary structure prediction. Thus, developments in network theory may help advance RNA biology.