Predicting RNA-RNA Interactions Using RNAstructure
Predicting RNA-RNA Interactions Using RNAstructure
复制标题
DOI：
10.1007/978-1-4939-6433-8_4
复制
发表时间：
2016-01-01
期刊：
影响因子：
--
通讯作者：
Mathews, David H.
中科院分区：
文献类型：
--
作者：
DiChiacchio, Laura;Mathews, David H.
RNA-RNA结合是细胞中许多调控和催化过程所必需的步骤。由于分子内和分子间结构形成之间的竞争，鉴定RNA-RNA杂交位点是具有挑战性的。RNA-RNA结合的完整图景包括对单链折叠和结合位点可及性的理解，并且强烈依赖于浓度。本章提供了使用rna结构预测RNA-RNA结合位点和RNA-RNA结构的指导，利用自由能最小化和配分函数计算。RNAstructure可以在http://rna.urmc.rochester.edu/RNAstructure.html上免费获得
RNA-RNA binding is a required step for many regulatory and catalytic processes in the cell. Identifying RNA-RNA hybridization sites is challenging because of the competition between intramolecular and intermolecular structure formation. A complete picture of RNA-RNA binding includes an understanding of single-stranded folding and binding site accessibility, and is strongly concentration-dependent. This chapter provides guidance for using RNAstructure to predict RNA-RNA binding sites and RNA-RNA structures, utilizing free energy minimization and partition function calculations. RNAstructure is freely available at http://rna.urmc.rochester.edu/RNAstructure.html