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RiboSubstrates specifications

Information


Unique identifier OMICS_23912
Name RiboSubstrates
Interface Web user interface
Restrictions to use None
Programming languages Perl
License GNU Lesser General Public License version 3.0
Computer skills Basic
Maintained No

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Publication for RiboSubstrates

RiboSubstrates citations

 (3)
library_books

Automated design of hammerhead ribozymes and validation by targeting the PABPN1 gene transcript

2015
Nucleic Acids Res
PMCID: 4770207
PMID: 26527730
DOI: 10.1093/nar/gkv1111

[…] sound. However, RiboSoft has several advantages: it uses the latest research on target-site accessibility; and it has off-target specificity analysis. Off-target accessibility could be evaluated with RiboSubstrates (), but the design of ribozymes would then require the use of two different tools, which makes automated design more complicated. RiboSoft also has the advantage of allowing specificati […]

library_books

Silencing of Amyloid Precursor Protein Expression Using a New Engineered Delta Ribozyme

2012
PMCID: 3296272
PMID: 22482079
DOI: 10.1155/2012/947147

[…] d SOFA-HDV-Rz-APP276, -APP753, -APP756, and -APP885, with cleavage activities of 62%, 36%, 36%, and 71%, respectively. These 4 potential SOFA-HDV ribozymes targeting the APP mRNA were tested with the ribosubstrates online software (http://www.riboclub.org/ribosubstrates). This integrated software searches selected cDNA databases for all of the potential substrates for a given SOFA-HDV ribozyme []. […]

library_books

Development of an isoform specific gene suppression system: the study of the human Pax 5B transcriptional element

2008
Nucleic Acids Res
PMCID: 2504290
PMID: 18617575
DOI: 10.1093/nar/gkn432

[…] ine in position –1, and no two consecutive pyrimidines in positions –1 and –2 (). Moreover, in order to ensure the substrate specificity of the SOFA-HDV Rz, the sequences targeted were analyzed using RiboSubstrates, an integrated bioinformatics software that enables a search of a cDNA database for all potential substrates for a given ribozyme (). This includes the mRNAs that perfectly match the sp […]

Citations

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RiboSubstrates institution(s)
RNA Group/Groupe ARN, Sherbrooke, QC, Canada; Département de microbiologie et infectiologie, Université de Sherbrooke, Sherbrooke, QC, Canada; Département de biochimie, Universite de Sherbrooke, Sherbrooke, QC, Canada; Institut Atlantique de Recherche sur le Cancer, Moncton, NB, Canada; Departement de Chimie et Biochimie, Universite de Moncton, Moncton, NB, Canada
RiboSubstrates funding source(s)
Supported by a grant from CIHR (PRG-80169) and Universite de Sherbrooke.

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