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rboAnalyzer webserver: web service for non-coding RNA characterization from NCBI BLAST output
Marek Schwarz1, Jiří Vohradský1, Josef Pánek1
1Laboratory of Bioinformatics, Institute of Microbiology, The Czech Academy of Sciences, Praha, Czech Republic.
Bioinformatics (Oxford, England)
|February 1, 2021
Summary
This study introduces rboAnalyzer, a web service for better characterization of non-coding RNAs (ncRNAs). It extends sequence data from BLAST outputs to predict homology and secondary structures, aiding RNA analysis.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- NCBI BLAST is a common tool for sequence alignment.
- Characterizing non-coding RNAs (ncRNAs) can be challenging with standard BLAST outputs.
- High-scoring pairs (HSPs) in BLAST may contain uncharacterized RNA sequences.
Purpose of the Study:
- To develop a web service for enhanced characterization of ncRNAs.
- To improve the analysis of subject sequences from NCBI BLAST outputs.
- To provide tools for predicting RNA homology and secondary structures.
Main Methods:
- The rboAnalyzer web service is based on a command-line application.
- It extends subject sequences within selected HSPs to their full length.
- Predicts homology and secondary structures of these extended sequences.
Main Results:
- The web service facilitates the characterization of previously unannotated ncRNAs in BLAST results.
- It offers interactive analysis with search, filtering, and data export functionalities.
- Improves the usability and depth of analysis for RNA sequences.
Conclusions:
- rboAnalyzer provides a valuable web service for improving ncRNA characterization.
- The tool aids researchers in understanding RNA function and structure from BLAST data.
- Offers an easy-to-use, interactive platform for bioinformatics analysis.
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