RNAthor - fast, accurate normalization, visualization and statistical analysis of RNA probing data resolved by capillary electrophoresis.
RNAthor - fast, accurate normalization, visualization and statistical analysis of RNA probing data resolved by capillary electrophoresis.
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DOI：
10.1371/journal.pone.0239287
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发表时间：
2020
期刊：
影响因子：
3.7
通讯作者：
Szachniuk M
中科院分区：
文献类型：
--
作者：
Gumna J;Zok T;Figurski K;Pachulska-Wieczorek K;Szachniuk M
RNA采用特定的结构来执行其功能，这对基本的细胞过程至关重要。几十年来，这些结构一直在计算方法的大力支持下被确定和建模。尽管如此，后一种方法的准确性取决于实验数据的可用性，例如，可以为RNA折叠算法定义假能量约束的化学探测信息。与此同时，已经开发了各种计算工具来促进对随后的毛细管电泳或下一代测序的RNA结构探测实验的数据的分析和可视化。RNAthor是一款用于毛细管电泳解析的SHAPE和DMS探测数据的全自动归一化的新软件工具，最近加入了这一集合。RNAthor自动识别不可靠的探测数据。它将反应性信息归一化到统一的尺度上，并将其用于RNA二级结构预测。我们的网络服务器还提供了快速、轻松的RNA探测、数据可视化和统计分析工具，便于比较多个数据集。RNAthor可在http://rnathor.cs.put.poznan.pl/.上免费获得
RNAs adopt specific structures to perform their functions, which are critical to fundamental cellular processes. For decades, these structures have been determined and modeled with strong support from computational methods. Still, the accuracy of the latter ones depends on the availability of experimental data, for example, chemical probing information that can define pseudo-energy constraints for RNA folding algorithms. At the same time, diverse computational tools have been developed to facilitate analysis and visualization of data from RNA structure probing experiments followed by capillary electrophoresis or next-generation sequencing. RNAthor, a new software tool for the fully automated normalization of SHAPE and DMS probing data resolved by capillary electrophoresis, has recently joined this collection. RNAthor automatically identifies unreliable probing data. It normalizes the reactivity information to a uniform scale and uses it in the RNA secondary structure prediction. Our web server also provides tools for fast and easy RNA probing data visualization and statistical analysis that facilitates the comparison of multiple data sets. RNAthor is freely available at http://rnathor.cs.put.poznan.pl/.
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