Visualizing RNA base-pairing probabilities with RNAbow diagrams
Visualizing RNA base-pairing probabilities with RNAbow diagrams
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DOI：
10.1261/rna.033365.112
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发表时间：
2013-04-01
期刊：
影响因子：
4.5
通讯作者：
Jannen, William K.
中科院分区：
文献类型：
--
作者：
Aalberts, Daniel P.;Jannen, William K.
有许多有效的方法来表示最小自由能RNA二级结构，使得定位其螺旋和环变得容易。可视化配分函数和中所有褶皱的热平均概率是一个更大的挑战；点图表示通常令人费解。因此，我们介绍了RNA碱基对概率的RNAbow可视化工具。RNAbow用线条粗细和阴影表示碱基对概率，从而产生直观的图表。RNAbow有助于解开不相容的结构，允许在褶皱簇之间进行比较，突出野生型和突变型褶皱之间的差异，而且还相当漂亮。
There are many effective ways to represent a minimum free energy RNA secondary structure that make it easy to locate its helices and loops. It is a greater challenge to visualize the thermal average probabilities of all folds in a partition function sum; dot plot representations are often puzzling. Therefore, we introduce the RNAbows visualization tool for RNA base pair probabilities. RNAbows represent base pair probabilities with line thickness and shading, yielding intuitive diagrams. RNAbows aid in disentangling incompatible structures, allow comparisons between clusters of folds, highlight differences between wild-type and mutant folds, and are also rather beautiful.