KnotInFrame statistics

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KnotInFrame specifications

Information


Unique identifier OMICS_06333
Name KnotInFrame
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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Unique identifier OMICS_06333
Name KnotInFrame
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for KnotInFrame

KnotInFrame in publications

 (4)
PMCID: 5660997
PMID: 29118750
DOI: 10.3389/fmicb.2017.02097

[…] virus sequence termini were assessed with the rnacofold web server http://rna.tbi.univie.ac.at/cgi-bin/rnawebsuite/rnacofold.cgi. ribosomal frameshifting events were predicted using the knotinframe tool https://bibiserv.cebitec.uni-bielefeld.de/knotinframe. the potential functions of the orfs products were predicted by the annotated data and similarity with known viral proteins. […]

PMCID: 3574045
PMID: 23173701
DOI: 10.1186/1743-422X-9-283

[…] used as negative controls., 384 full genomes of wnv were retrived from gene bank and aligned with bionumerics software package (version 6.5 applied-maths, belgium). genomes were further analized by knotinframe software (http://bibiserv.techfak.uni-bielefeld.de/knotinframe/) to predict ribosomal −1 frameshift sites with a pseudoknot strucuture., human sera were collected after informed consent […]

PMCID: 3398947
PMID: 22815791
DOI: 10.1371/journal.pone.0040683

[…] the programmed frameshift mechanism for gene expression and the majority of frameshift candidates appear to use a -1 frameshift . however, no canonical -1 frameshift signal has been detected by knotinframe, a tool for the prediction of ribosomal frameshift events . alternatively, orf55 and orf56 might encode two distinct proteins possibly forming a two-subunit complex. orf40 of spaa1 […]

PMCID: 3048546
PMID: 21324158
DOI: 10.1186/1471-2164-12-110

[…] transcripts were predicted with the rnaspl program of the softberry web server [] to check for alternative splicing. potential frame-shifting in the transcripts were checked with the web tool knotinframe []. repeat elements on the locus were identified using the program repeatmasker (v3.2.7) []., dotplot and blastz analyses between the itln locus of the 129s7 strain […]


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KnotInFrame institution(s)
Faculty of Technology, Bielefeld University, Bielefeld, Germany

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