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CentroidHomfold specifications


Unique identifier OMICS_03450
Name CentroidHomfold
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


Unique identifier OMICS_03450
Name CentroidHomfold
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for CentroidHomfold

CentroidHomfold citations


An Algorithm for Template Based Prediction of Secondary Structures of Individual RNA Sequences

Front Genet
PMCID: 5641303
PMID: 29067038
DOI: 10.3389/fgene.2017.00147
call_split See protocol

[…] les S2, S3. The sequences are included in Supplementary File . Templates including their sequences and structures are included in Supplementary File . The dataset was created from the test dataset of CentroidHomfold (Kiryu et al., ; Hamada et al., ) and extended with other RNAs to get more sequence/structure variability. The dataset consisted of 32 RNA families where at least one experimentally id […]


A general approach to high yield biosynthesis of chimeric RNAs bearing various types of functional small RNAs for broad applications

Nucleic Acids Res
PMCID: 4402540
PMID: 25800741
DOI: 10.1093/nar/gkv228

[…] The secondary structures of chimeric ncRNAs were predicted using the CentroidFold (http://www.ncrna.org/centroidfold) () and CentroidHomfold (http://www.ncrna.org/centroidhomfold) (). […]


Generalized Centroid Estimators in Bioinformatics

PLoS One
PMCID: 3041832
PMID: 21365017
DOI: 10.1371/journal.pone.0016450

[…] RNA sequences and is the length of RNA sequences. In , we employed a further approximation of the estimator, and reduced the computational cost to . We implemented this estimator in software called CentroidHomfold. See for details of the theory and results of computational experiments. Although the authors did not mention it in their paper , the following property holds.Property 19 (Computation […]


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CentroidHomfold institution(s)
Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan

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