CyloFold protocols

View CyloFold computational protocol

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CyloFold specifications

Information


Unique identifier OMICS_03454
Name CyloFold
Interface Web user interface
Restrictions to use None
Input data RNA sequence
Input format Raw, FASTA
Computer skills Basic
Maintained Yes

Maintainer


  • person_outline Bruce Shapiro <>

Publication for CyloFold

CyloFold in pipeline

2014
PMCID: 3962428
PMID: 24658296
DOI: 10.1371/journal.pone.0092377

[…] shown). the insertions did not lead to recovery of ns3/ns3a protein expression. to examine possible similarities in rna structure, rna sequences were subjected to rna structure predictions using cylofold (http://cylofold.abcc.ncifcrf.gov/), rnasalign (http://www.bio8.cs.hku.hk/rnasalign/) and alifold (http://rna.tbi.univie.ac.at/cgi-bin/rnaalifold.cgi) software. no obvious similarities […]


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CyloFold in publications

 (2)
PMCID: 4615843
PMID: 25806405
DOI: 10.1080/15476286.2015.1019998

[…] of parameters in a machine learning approach; vsfold5, which allow the prediction of pseudoknots by using sequential (5′ to 3′) folding and thermodynamically most-probable folding pathways and cylofold, which simulates the 3d folding process in a coarse-grain model. all predictions are shown in extended dot-bracket format to include pseudoknots. all 5 methods were run using […]

PMCID: 3962428
PMID: 24658296
DOI: 10.1371/journal.pone.0092377

[…] shown). the insertions did not lead to recovery of ns3/ns3a protein expression. to examine possible similarities in rna structure, rna sequences were subjected to rna structure predictions using cylofold (http://cylofold.abcc.ncifcrf.gov/), rnasalign (http://www.bio8.cs.hku.hk/rnasalign/) and alifold (http://rna.tbi.univie.ac.at/cgi-bin/rnaalifold.cgi) software. no obvious similarities […]


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CyloFold institution(s)
Basic Science Program, SAIC-Frederick, Inc; NCI-Frederick, Frederick, MD; Center for Cancer Research Nanobiology Program, NCI-Frederick, Frederick, MD, USA

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