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Norine: update of the nonribosomal peptide resource
Norine, the unique resource dedicated to nonribosomal peptides (NRPs), is now updated with a new pipeline to automate massive sourcing and enhance annotation. External databases are mined to extract NRPs that are not yet in Norine. To maintain a high data quality, successive filters are applied to a...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7145658/ https://www.ncbi.nlm.nih.gov/pubmed/31691799 http://dx.doi.org/10.1093/nar/gkz1000 |
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author | Flissi, Areski Ricart, Emma Campart, Clémentine Chevalier, Mickael Dufresne, Yoann Michalik, Juraj Jacques, Philippe Flahaut, Christophe Lisacek, Frédérique Leclère, Valérie Pupin, Maude |
author_facet | Flissi, Areski Ricart, Emma Campart, Clémentine Chevalier, Mickael Dufresne, Yoann Michalik, Juraj Jacques, Philippe Flahaut, Christophe Lisacek, Frédérique Leclère, Valérie Pupin, Maude |
author_sort | Flissi, Areski |
collection | PubMed |
description | Norine, the unique resource dedicated to nonribosomal peptides (NRPs), is now updated with a new pipeline to automate massive sourcing and enhance annotation. External databases are mined to extract NRPs that are not yet in Norine. To maintain a high data quality, successive filters are applied to automatically validate the NRP annotations and only validated data is inserted in the database. External databases were also used to complete annotations of NRPs already in Norine. Besides, annotation consistency inside Norine and between Norine and external sources have reported annotation errors. Some can be corrected automatically, while others need manual curation. This new approach led to the insertion of 539 new NRPs and the addition or correction of annotations of nearly all Norine entries. Two new tools to analyse the chemical structures of NRPs (rBAN) and to infer a molecular formula from the mass-to-charge ratio of an NRP (Kendrick Formula Predictor) were also integrated. Norine is freely accessible from the following URL: https://bioinfo.cristal.univ-lille.fr/norine/ |
format | Online Article Text |
id | pubmed-7145658 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-71456582020-04-13 Norine: update of the nonribosomal peptide resource Flissi, Areski Ricart, Emma Campart, Clémentine Chevalier, Mickael Dufresne, Yoann Michalik, Juraj Jacques, Philippe Flahaut, Christophe Lisacek, Frédérique Leclère, Valérie Pupin, Maude Nucleic Acids Res Database Issue Norine, the unique resource dedicated to nonribosomal peptides (NRPs), is now updated with a new pipeline to automate massive sourcing and enhance annotation. External databases are mined to extract NRPs that are not yet in Norine. To maintain a high data quality, successive filters are applied to automatically validate the NRP annotations and only validated data is inserted in the database. External databases were also used to complete annotations of NRPs already in Norine. Besides, annotation consistency inside Norine and between Norine and external sources have reported annotation errors. Some can be corrected automatically, while others need manual curation. This new approach led to the insertion of 539 new NRPs and the addition or correction of annotations of nearly all Norine entries. Two new tools to analyse the chemical structures of NRPs (rBAN) and to infer a molecular formula from the mass-to-charge ratio of an NRP (Kendrick Formula Predictor) were also integrated. Norine is freely accessible from the following URL: https://bioinfo.cristal.univ-lille.fr/norine/ Oxford University Press 2020-01-08 2019-11-06 /pmc/articles/PMC7145658/ /pubmed/31691799 http://dx.doi.org/10.1093/nar/gkz1000 Text en © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Database Issue Flissi, Areski Ricart, Emma Campart, Clémentine Chevalier, Mickael Dufresne, Yoann Michalik, Juraj Jacques, Philippe Flahaut, Christophe Lisacek, Frédérique Leclère, Valérie Pupin, Maude Norine: update of the nonribosomal peptide resource |
title | Norine: update of the nonribosomal peptide resource |
title_full | Norine: update of the nonribosomal peptide resource |
title_fullStr | Norine: update of the nonribosomal peptide resource |
title_full_unstemmed | Norine: update of the nonribosomal peptide resource |
title_short | Norine: update of the nonribosomal peptide resource |
title_sort | norine: update of the nonribosomal peptide resource |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7145658/ https://www.ncbi.nlm.nih.gov/pubmed/31691799 http://dx.doi.org/10.1093/nar/gkz1000 |
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