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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...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cold Spring Harbor Laboratory Press
2017
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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. |
format | Online Article Text |
id | pubmed-5602107 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Cold Spring Harbor Laboratory Press |
record_format | MEDLINE/PubMed |
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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