RNA Structure Modeling Using Physics and Sequence Comparison

摘要： RNA序列在生物学中具有广泛的作用，RNA分子也很重要 制药公司。这些RNA分子中的许多通过使用特定的结构发挥作用，而这些 因此，结构在进化过程中是保守的。可获得高吞吐量 方法为了鉴定RNA转录本和探针结构，需要对这些结构进行建模 从可用的数据中获取最多的信息。马修斯实验室的目标是开发 模拟RNA结构的算法和软件，包括二级和三级结构。 我们专注于使用生物物理学原理，我们也走在了整合 我们的模型中的其他信息，包括实验映射数据和结构 保护环境。在这里，我们将在以前工作的基础上开发新的结构 预测方法。我们免费向社区提供我们的软件，我们严格测试我们的 方法与实验者密切合作。

Abstract: RNA sequences have pervasive roles in biology and RNA molecules are also important pharmaceuticals. Many of these RNA molecules function by use of specific structures, and these structures are therefore conserved across evolution. With the availability of high throughput methods to identify RNA transcripts and probe structure, there is a need to model these structures to get the most information from available data. The goal of the Mathews lab is to develop algorithms and software to model RNA structures, including secondary and tertiary structures. We focus on using biophysical principles, and we are also at the forefront of incorporating additional information in our models, including experimental mapping data and structure conservation. Here, we will build on the foundation of prior work to develop new structure prediction methods. We provide our software freely to the community and we rigorously test our methods with close collaborations with experimentalists.