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TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues

microRNAs are small RNA molecules that inhibit the translation of target genes. microRNA binding sites are located in the untranslated regions as well as in the coding domains. We describe TmiRUSite and TmiROSite scripts developed using python as tools for the extraction of nucleotide sequences for...

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Detalles Bibliográficos
Autores principales: Berillo, Olga, Régnier, Mireille, Ivashchenko, Anatoly
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Biomedical Informatics 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4135299/
https://www.ncbi.nlm.nih.gov/pubmed/25187691
http://dx.doi.org/10.6026/97320630010472
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author Berillo, Olga
Régnier, Mireille
Ivashchenko, Anatoly
author_facet Berillo, Olga
Régnier, Mireille
Ivashchenko, Anatoly
author_sort Berillo, Olga
collection PubMed
description microRNAs are small RNA molecules that inhibit the translation of target genes. microRNA binding sites are located in the untranslated regions as well as in the coding domains. We describe TmiRUSite and TmiROSite scripts developed using python as tools for the extraction of nucleotide sequences for miRNA binding sites with their encoded amino acid residue sequences. The scripts allow for retrieving a set of additional sequences at left and at right from the binding site. The scripts presents all received data in table formats that are easy to analyse further. The predicted data finds utility in molecular and evolutionary biology studies. They find use in studying miRNA binding sites in animals and plants. AVAILABILITY: TmiRUSite and TmiROSite scripts are available for free from authors upon request and at https: //sites.google.com/site/malaheenee/downloads for download
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spelling pubmed-41352992014-09-03 TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues Berillo, Olga Régnier, Mireille Ivashchenko, Anatoly Bioinformation Software microRNAs are small RNA molecules that inhibit the translation of target genes. microRNA binding sites are located in the untranslated regions as well as in the coding domains. We describe TmiRUSite and TmiROSite scripts developed using python as tools for the extraction of nucleotide sequences for miRNA binding sites with their encoded amino acid residue sequences. The scripts allow for retrieving a set of additional sequences at left and at right from the binding site. The scripts presents all received data in table formats that are easy to analyse further. The predicted data finds utility in molecular and evolutionary biology studies. They find use in studying miRNA binding sites in animals and plants. AVAILABILITY: TmiRUSite and TmiROSite scripts are available for free from authors upon request and at https: //sites.google.com/site/malaheenee/downloads for download Biomedical Informatics 2014-07-22 /pmc/articles/PMC4135299/ /pubmed/25187691 http://dx.doi.org/10.6026/97320630010472 Text en © 2014 Biomedical Informatics This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
spellingShingle Software
Berillo, Olga
Régnier, Mireille
Ivashchenko, Anatoly
TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title_full TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title_fullStr TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title_full_unstemmed TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title_short TmiRUSite and TmiROSite scripts: searching for mRNA fragments with miRNA binding sites with encoded amino acid residues
title_sort tmirusite and tmirosite scripts: searching for mrna fragments with mirna binding sites with encoded amino acid residues
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4135299/
https://www.ncbi.nlm.nih.gov/pubmed/25187691
http://dx.doi.org/10.6026/97320630010472
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