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INFO-RNA specifications

Information


Unique identifier OMICS_04757
Name INFO-RNA
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Anke Busch <>

Information


Unique identifier OMICS_04757
Name INFO-RNA
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Anke Busch <>

Publications for INFO-RNA

INFO-RNA in publications

 (6)
PMCID: 5333189
PMID: 28045501
DOI: 10.1021/acsnano.6b05737

[…] designed from prna (b-ii).,,,,− (6) construction of rna nanoparticles via computational design. several software programs have been developed over the years, such as nanotiler, assemble2, rna2d3d, info-rna, and nupack, which are useful to design de novo rna nanoparticles. examples are a six-membered rna nanoring and an rna nanocube generated using nanotiler (c). long sequences as well […]

PMCID: 4066900
PMID: 24758371
DOI: 10.1021/ar400329z

[…] folding requirements. the program rna-ssd uses a stochastic local search algorithm for identifying sequences with minimal differences between the predicted and the desired secondary structure., info-rna utilizes a dynamic programming algorithm as a first computational stage, followed by a local stochastic search to further optimize the set of sequences. nupack performs sequence design using […]

PMCID: 3526635
PMID: 23284639
DOI: 10.1371/journal.pone.0050506

[…] one would like to design rapidly folding rna molecules that fold into a designated target structure. (see , , , for more on synthetic biology.) in particular, one could use rnainverse , rna-ssd , info-rna , or our recent constraint programming exact solution of rna inverse folding, rnaifold (to appear in journal of bioinformatics and computational biology, see […]

PMCID: 3337422
PMID: 22558001
DOI: 10.3389/fgene.2012.00036

[…] to find desired rna sequences. we can find the following six rna inverse folding algorithms in literature: local search algorithms [rnainverse (hofacker et al., ), rna-ssd (andronescu et al., ), info-rna (busch and backofen, ), inv (gao et al., ), design in nupack (zadeh et al., )] and a genetic algorithm [ga; modena (taneda, )]. the local search algorithms are well characterized […]

PMCID: 2909241
PMID: 20573197
DOI: 10.1186/1748-7188-5-27

[…] is of interest to find rna sequences folding into a specific structure and to analyze their induced neutral networks. since the established inverse folding algorithms, rnainverse, rna-ssd as well as info-rna are limited to rna secondary structures, we present in this paper the inverse folding algorithm inv which can deal with 3-noncrossing, canonical pseudoknot structures., in this paper […]


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INFO-RNA institution(s)
Albert-Ludwigs-University Freiburg, Institute of Computer Science, Bioinformatics Group, Freiburg, Germany

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