Visualizing RNA base-pairing probabilities with RNAbow diagrams

被引：15

作者：

Aalberts, Daniel P. ^{[1
]}

Jannen, William K. ^{[1
]}

机构：

[1] Williams Coll, Dept Phys, Williamstown, MA 01267 USA

来源：

RNA | 2013年 / 19卷 / 04期

基金：

美国国家卫生研究院; 美国国家科学基金会;

关键词：

chemical mapping; mutations; partition function; secondary structure; visualization; SECONDARY STRUCTURE PREDICTION; ALGORITHMS; CONSTRAINTS; MODELS; SERVER;

D O I：

10.1261/rna.033365.112

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：475 / 478

页数：4

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