RNAsnoop
RNAsnoop is a software tool that predicts the target nucleotides of orphan box H/ACA subclass small nucleolar RNAs (snoRNAs) using a dynamic programming algorithm that computes thermodynamically optimal H/ACA-RNA interactions. It is complemented by a support vector machine (SVM)-based machine learning approach to distinguish true binding sites from spurious solutions and a system to evaluate comparative information. The C source code of RNAsnoop is freely available for use.
Topic
Molecular interactions, pathways and networks;RNA;Nucleic acid structure analysis
Detail
Operation: Structured RNA prediction and optimisation
Software interface: Command-line user interface
Language: Perl
License: -
Cost: Free
Version name: -
Credit: European Union under the auspices of the FP-6 SYNLET and the FP-7 QUANTOMICS project, the Austrian GEN-AU project ‘Regulatory Noncoding RNA’.
Input: -
Output: -
Contact: htafer@gmail.com
Collection: -
Maturity: -
Publications
- RNAsnoop: efficient target prediction for H/ACA snoRNAs.
- Tafer H, et al. RNAsnoop: efficient target prediction for H/ACA snoRNAs. RNAsnoop: efficient target prediction for H/ACA snoRNAs. 2010; 26:610-6. doi: 10.1093/bioinformatics/btp680
- https://doi.org/10.1093/bioinformatics/btp680
- PMID: 20015949
- PMC: -
Download and documentation
Source: http://www.bioinf.uni-leipzig.de/~htafer/RNAsnoop/RNAsnoop.tgz
Home page: http://www.bioinf.uni-leipzig.de/~htafer/RNAsnoop/RNAsnoop.html
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