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The yeast noncoding RNA interaction network

This article describes the creation of the first expert manually curated noncoding RNA interaction networks for S. cerevisiae. The RNA–RNA and RNA–protein interaction networks have been carefully extracted from the experimental literature and made available through the IntAct database (www.ebi.ac.uk...

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Detalles Bibliográficos
Autores principales: Panni, Simona, Prakash, Ananth, Bateman, Alex, Orchard, Sandra
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory Press 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5602107/
https://www.ncbi.nlm.nih.gov/pubmed/28701522
http://dx.doi.org/10.1261/rna.060996.117
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author Panni, Simona
Prakash, Ananth
Bateman, Alex
Orchard, Sandra
author_facet Panni, Simona
Prakash, Ananth
Bateman, Alex
Orchard, Sandra
author_sort Panni, Simona
collection PubMed
description This article describes the creation of the first expert manually curated noncoding RNA interaction networks for S. cerevisiae. The RNA–RNA and RNA–protein interaction networks have been carefully extracted from the experimental literature and made available through the IntAct database (www.ebi.ac.uk/intact). We provide an initial network analysis and compare their properties to the much larger protein–protein interaction network. We find that the proteins that bind to ncRNAs in the network contain only a small proportion of classical RNA binding domains. We also see an enrichment of WD40 domains suggesting their direct involvement in ncRNA interactions. We discuss the challenges in collecting noncoding RNA interaction data and the opportunities for worldwide collaboration to fill the unmet need for this data.
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spelling pubmed-56021072017-10-04 The yeast noncoding RNA interaction network Panni, Simona Prakash, Ananth Bateman, Alex Orchard, Sandra RNA Bioinformatics This article describes the creation of the first expert manually curated noncoding RNA interaction networks for S. cerevisiae. The RNA–RNA and RNA–protein interaction networks have been carefully extracted from the experimental literature and made available through the IntAct database (www.ebi.ac.uk/intact). We provide an initial network analysis and compare their properties to the much larger protein–protein interaction network. We find that the proteins that bind to ncRNAs in the network contain only a small proportion of classical RNA binding domains. We also see an enrichment of WD40 domains suggesting their direct involvement in ncRNA interactions. We discuss the challenges in collecting noncoding RNA interaction data and the opportunities for worldwide collaboration to fill the unmet need for this data. Cold Spring Harbor Laboratory Press 2017-10 /pmc/articles/PMC5602107/ /pubmed/28701522 http://dx.doi.org/10.1261/rna.060996.117 Text en © 2017 Panni et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society http://creativecommons.org/licenses/by-nc/4.0/ This article, published in RNA, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
spellingShingle Bioinformatics
Panni, Simona
Prakash, Ananth
Bateman, Alex
Orchard, Sandra
The yeast noncoding RNA interaction network
title The yeast noncoding RNA interaction network
title_full The yeast noncoding RNA interaction network
title_fullStr The yeast noncoding RNA interaction network
title_full_unstemmed The yeast noncoding RNA interaction network
title_short The yeast noncoding RNA interaction network
title_sort yeast noncoding rna interaction network
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5602107/
https://www.ncbi.nlm.nih.gov/pubmed/28701522
http://dx.doi.org/10.1261/rna.060996.117
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