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Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites
Transcript levels do not faithfully predict protein levels, due to post-transcriptional regulation of gene expression mediated by RNA binding proteins (RBPs) and non-coding RNAs. We developed a multivariate linear regression model integrating RBP levels and predicted RBP-mRNA regulatory interactions...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5140048/ https://www.ncbi.nlm.nih.gov/pubmed/27923063 http://dx.doi.org/10.1371/journal.pcbi.1005198 |
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author | Re, Angela Waldron, Levi Quattrone, Alessandro |
author_facet | Re, Angela Waldron, Levi Quattrone, Alessandro |
author_sort | Re, Angela |
collection | PubMed |
description | Transcript levels do not faithfully predict protein levels, due to post-transcriptional regulation of gene expression mediated by RNA binding proteins (RBPs) and non-coding RNAs. We developed a multivariate linear regression model integrating RBP levels and predicted RBP-mRNA regulatory interactions from matched transcript and protein datasets. RBPs significantly improved the accuracy in predicting protein abundance of a portion of the total modeled mRNAs in three panels of tissues and cells and for different methods employed in the detection of mRNA and protein. The presence of upstream translation initiation sites (uTISs) at the mRNA 5’ untranslated regions was strongly associated with improvement in predictive accuracy. On the basis of these observations, we propose that the recently discovered widespread uTISs in the human genome can be a previously unappreciated substrate of translational control mediated by RBPs. |
format | Online Article Text |
id | pubmed-5140048 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-51400482016-12-21 Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites Re, Angela Waldron, Levi Quattrone, Alessandro PLoS Comput Biol Research Article Transcript levels do not faithfully predict protein levels, due to post-transcriptional regulation of gene expression mediated by RNA binding proteins (RBPs) and non-coding RNAs. We developed a multivariate linear regression model integrating RBP levels and predicted RBP-mRNA regulatory interactions from matched transcript and protein datasets. RBPs significantly improved the accuracy in predicting protein abundance of a portion of the total modeled mRNAs in three panels of tissues and cells and for different methods employed in the detection of mRNA and protein. The presence of upstream translation initiation sites (uTISs) at the mRNA 5’ untranslated regions was strongly associated with improvement in predictive accuracy. On the basis of these observations, we propose that the recently discovered widespread uTISs in the human genome can be a previously unappreciated substrate of translational control mediated by RBPs. Public Library of Science 2016-12-06 /pmc/articles/PMC5140048/ /pubmed/27923063 http://dx.doi.org/10.1371/journal.pcbi.1005198 Text en © 2016 Re et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Re, Angela Waldron, Levi Quattrone, Alessandro Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title | Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title_full | Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title_fullStr | Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title_full_unstemmed | Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title_short | Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites |
title_sort | control of gene expression by rna binding protein action on alternative translation initiation sites |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5140048/ https://www.ncbi.nlm.nih.gov/pubmed/27923063 http://dx.doi.org/10.1371/journal.pcbi.1005198 |
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