inteRNA statistics

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Popular tool citations

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Associated diseases

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inteRNA specifications

Information


Unique identifier OMICS_23839
Name inteRNA
Alternative name Agile inteRNA
Software type Application/Script
Interface Web user interface
Restrictions to use None
Input data RNA sequences, target mRNA and antisense RNA.
Input format FASTA
Output data A file that contains the base-pair information of the joint secondary structure, an image file that can help visualize the joint secondary structure prediction of the input RNAs and a file reporting the calculated free energy of the predicted joint secondary structure.
Output format TXT+JPEG
Computer skills Basic
Version 3.3
Stability Stable
Source code URL http://compbio.cs.sfu.ca/nwp-content/software/taverna/interna/interact.tar.gz
Maintained No

Maintainer


This tool is not available anymore.

Publications for inteRNA

inteRNA in publication

PMCID: 4122056
PMID: 25114714
DOI: 10.1186/1748-7188-9-17

[…] as an objective function of integer programming. petcofold [] employs covariance information in the internal and external base pairs to predict ssir of two multiple alignments of rna sequences. interna [] reduces the time and space complexity of rrip problem described by alkan et al. [] using dynamic programming sparsification., one of the pitfalls of the most existing algorithms […]


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inteRNA institution(s)
Laboratory for Computational Biology, School of Computing Science, Simon Fraser University, Burnaby, BC, Canada; Bioinformatics, Institute of Computer Science, Albert-Ludwigs-Universitat, Freiburg, Germany
inteRNA funding source(s)
Supported by SFU-CTEF funded Bioinformatics for Combating Infectious Diseases Project, the German Research Foundation (DFG grant BA 2168/3-1), MITACS, NSERC, the CRC program and the Michael Smith Foundation for Health Research, the German Research Foundation (DFG grant BA 2168/2-1 SPP 1258) and the German Federal Ministry of Education and Research (BMBF grant 0313921 FRISYS).

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