用 RNAbow 图可视化 RNA 碱基配对概率。
Visualizing RNA base-pairing probabilities with RNAbow diagrams.
机构信息
Department of Physics, Williams College, Williamstown, MA 01267, USA.
出版信息
RNA. 2013 Apr;19(4):475-8. doi: 10.1261/rna.033365.112. Epub 2013 Feb 13.
Abstract
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.
摘要
有许多有效的方法可以表示最小自由能 RNA 二级结构，这使得定位其螺旋和环变得容易。更具挑战性的是可视化分配函数和中所有折叠的热平均概率；点图表示法通常令人困惑。因此，我们引入了 RNAbows 可视化工具来表示 RNA 碱基对概率。RNAbows 用线的厚度和阴影表示碱基对概率，生成直观的图表。RNAbows 有助于解开不兼容的结构，允许在折叠簇之间进行比较，突出野生型和突变型折叠之间的差异，而且也非常漂亮。
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