RNAthor – fast, accurate normalization, visualization and statistical analysis of RNA probing data resolved by capillary electrophoresis

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 experi...

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Bibliographic Details
Published inPloS one Vol. 15; no. 10; p. e0239287
Main Authors Gumna, Julita, Zok, Tomasz, Figurski, Kacper, Pachulska-Wieczorek, Katarzyna, Szachniuk, Marta
Format Journal Article
LanguageEnglish
Published San Francisco Public Library of Science 01.10.2020
Public Library of Science (PLoS)
Subjects
Algorithms
Applications software
Automation
Biology and life sciences
Capillary electrophoresis
Cellular structure
Chemistry
Computer and Information Sciences
Computer applications
Electrophoresis
Experiments
Methods
Next-generation sequencing
Physical Sciences
Protein structure
Reagents
Research and analysis methods
Ribonucleic acid
RNA
RNA sequencing
Scientific visualization
Secondary structure
Software
Software development tools
Statistical analysis
Statistical analysis of data
Statistical methods
Statistics
Structure
Visualization
Visualization (Computer)
Poland
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Summary: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
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Competing Interests: The authors have declared that no competing interests exist.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0239287