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Comparative context analysis of codon pairs on an ORFeome scale
Codon context is an important feature of gene primary structure that modulates mRNA decoding accuracy. We have developed an analytical software package and a graphical interface for comparative codon context analysis of all the open reading frames in a genome (the ORFeome). Using the complete ORFeom...
Autores principales: | , , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2005
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1088947/ https://www.ncbi.nlm.nih.gov/pubmed/15774029 http://dx.doi.org/10.1186/gb-2005-6-3-r28 |
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author | Moura, Gabriela Pinheiro, Miguel Silva, Raquel Miranda, Isabel Afreixo, Vera Dias, Gaspar Freitas, Adelaide Oliveira, José L Santos, Manuel AS |
author_facet | Moura, Gabriela Pinheiro, Miguel Silva, Raquel Miranda, Isabel Afreixo, Vera Dias, Gaspar Freitas, Adelaide Oliveira, José L Santos, Manuel AS |
author_sort | Moura, Gabriela |
collection | PubMed |
description | Codon context is an important feature of gene primary structure that modulates mRNA decoding accuracy. We have developed an analytical software package and a graphical interface for comparative codon context analysis of all the open reading frames in a genome (the ORFeome). Using the complete ORFeome sequences of Saccharomyces cerevisiae, Schizosaccharomyces pombe, Candida albicans and Escherichia coli, we show that this methodology permits large-scale codon context comparisons and provides new insight on the rules that govern the evolution of codon-pair context. |
format | Text |
id | pubmed-1088947 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2005 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-10889472005-05-05 Comparative context analysis of codon pairs on an ORFeome scale Moura, Gabriela Pinheiro, Miguel Silva, Raquel Miranda, Isabel Afreixo, Vera Dias, Gaspar Freitas, Adelaide Oliveira, José L Santos, Manuel AS Genome Biol Method Codon context is an important feature of gene primary structure that modulates mRNA decoding accuracy. We have developed an analytical software package and a graphical interface for comparative codon context analysis of all the open reading frames in a genome (the ORFeome). Using the complete ORFeome sequences of Saccharomyces cerevisiae, Schizosaccharomyces pombe, Candida albicans and Escherichia coli, we show that this methodology permits large-scale codon context comparisons and provides new insight on the rules that govern the evolution of codon-pair context. BioMed Central 2005 2005-02-15 /pmc/articles/PMC1088947/ /pubmed/15774029 http://dx.doi.org/10.1186/gb-2005-6-3-r28 Text en Copyright © 2005 Moura et al.; licensee BioMed Central Ltd. |
spellingShingle | Method Moura, Gabriela Pinheiro, Miguel Silva, Raquel Miranda, Isabel Afreixo, Vera Dias, Gaspar Freitas, Adelaide Oliveira, José L Santos, Manuel AS Comparative context analysis of codon pairs on an ORFeome scale |
title | Comparative context analysis of codon pairs on an ORFeome scale |
title_full | Comparative context analysis of codon pairs on an ORFeome scale |
title_fullStr | Comparative context analysis of codon pairs on an ORFeome scale |
title_full_unstemmed | Comparative context analysis of codon pairs on an ORFeome scale |
title_short | Comparative context analysis of codon pairs on an ORFeome scale |
title_sort | comparative context analysis of codon pairs on an orfeome scale |
topic | Method |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1088947/ https://www.ncbi.nlm.nih.gov/pubmed/15774029 http://dx.doi.org/10.1186/gb-2005-6-3-r28 |
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