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ImproveAssembly - Tool for identifying new gene products and improving genome assembly
The availability of biological information in public databases has increased exponentially. To ensure the accuracy of this information, researchers have adopted several methods and refinements to avoid the dissemination of incorrect information; for example, several automated tools are available for...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6203371/ https://www.ncbi.nlm.nih.gov/pubmed/30365512 http://dx.doi.org/10.1371/journal.pone.0206000 |
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author | Veras, Adonney Allan de Oliveira Merlin, Bruno de Sá, Pablo Henrique Caracciolo Gomes |
author_facet | Veras, Adonney Allan de Oliveira Merlin, Bruno de Sá, Pablo Henrique Caracciolo Gomes |
author_sort | Veras, Adonney Allan de Oliveira |
collection | PubMed |
description | The availability of biological information in public databases has increased exponentially. To ensure the accuracy of this information, researchers have adopted several methods and refinements to avoid the dissemination of incorrect information; for example, several automated tools are available for annotation processes. However, manual curation ensures and enriches biological information. Additionally, the genomic finishing process is complex, resulting in increased deposition of drafts genomes. This introduces bias in other omics analyses because incomplete genomic content is used. This is also observed for complete genomes. For example, genomes generated by reference assembly may not include new products in the new sequence or errors or bias can occur during the assembly process. Thus, we developed ImproveAssembly, a tool capable of identifying new products missing from genomic sequences, which can be used for complete and draft genomes. The identified products can improve the annotation of complete genomes and drafts while significantly reducing the bias when the information is used in other omics analyses. |
format | Online Article Text |
id | pubmed-6203371 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-62033712018-11-19 ImproveAssembly - Tool for identifying new gene products and improving genome assembly Veras, Adonney Allan de Oliveira Merlin, Bruno de Sá, Pablo Henrique Caracciolo Gomes PLoS One Research Article The availability of biological information in public databases has increased exponentially. To ensure the accuracy of this information, researchers have adopted several methods and refinements to avoid the dissemination of incorrect information; for example, several automated tools are available for annotation processes. However, manual curation ensures and enriches biological information. Additionally, the genomic finishing process is complex, resulting in increased deposition of drafts genomes. This introduces bias in other omics analyses because incomplete genomic content is used. This is also observed for complete genomes. For example, genomes generated by reference assembly may not include new products in the new sequence or errors or bias can occur during the assembly process. Thus, we developed ImproveAssembly, a tool capable of identifying new products missing from genomic sequences, which can be used for complete and draft genomes. The identified products can improve the annotation of complete genomes and drafts while significantly reducing the bias when the information is used in other omics analyses. Public Library of Science 2018-10-26 /pmc/articles/PMC6203371/ /pubmed/30365512 http://dx.doi.org/10.1371/journal.pone.0206000 Text en © 2018 Veras 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 Veras, Adonney Allan de Oliveira Merlin, Bruno de Sá, Pablo Henrique Caracciolo Gomes ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title | ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title_full | ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title_fullStr | ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title_full_unstemmed | ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title_short | ImproveAssembly - Tool for identifying new gene products and improving genome assembly |
title_sort | improveassembly - tool for identifying new gene products and improving genome assembly |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6203371/ https://www.ncbi.nlm.nih.gov/pubmed/30365512 http://dx.doi.org/10.1371/journal.pone.0206000 |
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