The Determination of RNA Folding Nearest Neighbor Parameters
The Determination of RNA Folding Nearest Neighbor Parameters
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DOI：
10.1007/978-1-62703-709-9_3
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发表时间：
2014-01-01
期刊：
影响因子：
--
通讯作者：
Mathews, David H.
中科院分区：
文献类型：
--
作者：
Andronescu, Mirela;Condon, Anne;Mathews, David H.
RNA二级结构的稳定性可以用一组最近邻参数来预测。这些参数被广泛用于预测二级结构的算法。这篇文章介绍了用于确定短RNA链折叠稳定性的紫外光熔融实验。它解释了如何选择最近邻参数以及如何将值与数据相匹配。最后给出了一个最近邻计算的实例。文章最后提出了使用具有已知结构的序列数据库来确定参数值的新方法。
The stability of RNA secondary structure can be predicted using a set of nearest neighbor parameters. These parameters are widely used by algorithms that predict secondary structure. This contribution introduces the UV optical melting experiments that are used to determine the folding stability of short RNA strands. It explains how the nearest neighbor parameters are chosen and how the values are fit to the data. A sample nearest neighbor calculation is provided. The contribution concludes with new methods that use the database of sequences with known structures to determine parameter values.