corRna specifications

Information


Unique identifier OMICS_16589
Name corRna
Interface Web user interface
Restrictions to use None
Input data An RNA sequence, an optional email address.
Output data A table that displays all predicted deleterious mutations, the minimum free energy (MFE) secondary structure, the base pair correlation, the MFE value of the mutant, the number of mutations and the significance of the candidate.
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Jerome Waldispuhl

Publication for corRna

corRna citations

 (2)
library_books

RNAsnp: Efficient Detection of Local RNA Secondary Structure Changes Induced by SNPs

2013
Hum Mutat
PMCID: 3708107
PMID: 23315997
DOI: 10.1002/humu.22273

[…] f pairing probabilities of wild-type and mutant to quantify the structural effect of the SNP and to identify “RiboSNitches,” that is, SNPs with particularly dramatic effects on the RNA structure. The corRna web server [Lam et al., ] adheres to the same strategy but uses RNAmutants [Waldispühl et al., ] to compute the structural ensembles for the entire k-neighborhood of the reference sequence. Rch […]

library_books

MADAM An open source meta analysis toolbox for R and Bioconductor

2010
Source Code Biol Med
PMCID: 2848045
PMID: 20193058
DOI: 10.1186/1751-0473-5-3

[…] rame of measurements. While we do not yet provide solutions for the first type of error in the MADAM package, we do provide functions for dealing with sparsely distributed missing values.The function corrNA provides two different imputation approaches for missing values. The first method substitutes missing values up to a ratio of ρ within one group. For this substitution, we replace all of the mi […]

corRna institution(s)
McGill Centre for Bioinformatics, McGill University, Montreal, QC, Canada; School of Computer Science, McGill University, Montreal, QC, Canada
corRna funding source(s)
Supported by the Natural Sciences and Engineering Research Council of Canada discovery program.

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