关于RNA分支多面体的结构
On the structure of RNA branching polytopes
摘要：
RNA二级结构预测的常用方法是基于最近邻热力学模型（NNTM）的自由能最小化方法。模型中最不发达的部分之一是分配给多分支回路的能量函数。可以进行参数分析，以阐明预测对NNTM中使用的分支参数的依赖性。由于目标函数是线性的，这归结为分析分支多面体的正常风扇。在这里，我们表明，由于在NNTM下的多分支循环的评分方式，某些分支模式是可能的所有序列。我们这样做，通过表征的参数空间的主要部分，通过查看正常风扇的相关部分获得;因此，我们得出结论，通常在自然界中发现的结构是获得一个相对较小的参数集。
英文摘要：
The prevalent method for RNA secondary structure prediction for a single sequence is free energy minimization based on the nearest neighbor thermodynamic model (NNTM). One of the least well-developed parts of the model is the energy function assigned to the multibranch loops. Parametric analysis can be performed to elucidate the dependance of the prediction on the branching parameters used in the NNTM. Since the objective function is linear, this boils down to analyzing the normal fans of the branching polytopes. Here we show that because of the way the multibranch loops are scored under the NNTM, certain branching patterns are possible for all sequences. We do this by characterizing the dominant parts of the parameter space obtained by looking at the relevant section of the normal fan; therefore, we conclude that the structures that are normally found in nature are obtained for a relatively small set of parameters.
机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。
