Sequence-based prediction of protein-protein interactions by means of codon usage

We introduce a novel approach to predict interaction of two proteins solely by analyzing their coding sequences. We found that similarity in codon usage is a strong predictor of protein-protein interactions and, for high specificity values, is as sensitive as the most powerful current prediction met...

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Detalles Bibliográficos
Autores principales: Najafabadi, Hamed Shateri, Salavati, Reza
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2008
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2441473/
https://www.ncbi.nlm.nih.gov/pubmed/18501006
http://dx.doi.org/10.1186/gb-2008-9-5-r87
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author Najafabadi, Hamed Shateri
Salavati, Reza
author_facet Najafabadi, Hamed Shateri
Salavati, Reza
author_sort Najafabadi, Hamed Shateri
collection PubMed
description We introduce a novel approach to predict interaction of two proteins solely by analyzing their coding sequences. We found that similarity in codon usage is a strong predictor of protein-protein interactions and, for high specificity values, is as sensitive as the most powerful current prediction methods. Furthermore, combining codon usage with other predictors results in a 75% increase in sensitivity at a precision of 50%, compared to prediction without considering codon usage.
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spelling pubmed-24414732008-06-28 Sequence-based prediction of protein-protein interactions by means of codon usage Najafabadi, Hamed Shateri Salavati, Reza Genome Biol Method We introduce a novel approach to predict interaction of two proteins solely by analyzing their coding sequences. We found that similarity in codon usage is a strong predictor of protein-protein interactions and, for high specificity values, is as sensitive as the most powerful current prediction methods. Furthermore, combining codon usage with other predictors results in a 75% increase in sensitivity at a precision of 50%, compared to prediction without considering codon usage. BioMed Central 2008 2008-05-23 /pmc/articles/PMC2441473/ /pubmed/18501006 http://dx.doi.org/10.1186/gb-2008-9-5-r87 Text en Copyright © 2008 Najafabadi and Salavati; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Najafabadi, Hamed Shateri
Salavati, Reza
Sequence-based prediction of protein-protein interactions by means of codon usage
title Sequence-based prediction of protein-protein interactions by means of codon usage
title_full Sequence-based prediction of protein-protein interactions by means of codon usage
title_fullStr Sequence-based prediction of protein-protein interactions by means of codon usage
title_full_unstemmed Sequence-based prediction of protein-protein interactions by means of codon usage
title_short Sequence-based prediction of protein-protein interactions by means of codon usage
title_sort sequence-based prediction of protein-protein interactions by means of codon usage
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2441473/
https://www.ncbi.nlm.nih.gov/pubmed/18501006
http://dx.doi.org/10.1186/gb-2008-9-5-r87
work_keys_str_mv AT najafabadihamedshateri sequencebasedpredictionofproteinproteininteractionsbymeansofcodonusage
AT salavatireza sequencebasedpredictionofproteinproteininteractionsbymeansofcodonusage

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