CSO validator: improving manual curation workflow for biological pathways

Summary: Manual curation and validation of large-scale biological pathways are required to obtain high-quality pathway databases. In a typical curation process, model validation and model update based on appropriate feedback are repeated and requires considerable cooperation of scientists. We have d...

Descripción completa

Detalles Bibliográficos
Autores principales: Jeong, Euna, Nagasaki, Masao, Ikeda, Emi, Sekiya, Yayoi, Saito, Ayumu, Miyano, Satoru
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3157922/
https://www.ncbi.nlm.nih.gov/pubmed/21743062
http://dx.doi.org/10.1093/bioinformatics/btr395
_version_ 1782210344183136256
author Jeong, Euna
Nagasaki, Masao
Ikeda, Emi
Sekiya, Yayoi
Saito, Ayumu
Miyano, Satoru
author_facet Jeong, Euna
Nagasaki, Masao
Ikeda, Emi
Sekiya, Yayoi
Saito, Ayumu
Miyano, Satoru
author_sort Jeong, Euna
collection PubMed
description Summary: Manual curation and validation of large-scale biological pathways are required to obtain high-quality pathway databases. In a typical curation process, model validation and model update based on appropriate feedback are repeated and requires considerable cooperation of scientists. We have developed a CSO (Cell System Ontology) validator to reduce the repetition and time during the curation process. This tool assists in quickly obtaining agreement among curators and domain experts and in providing a consistent and accurate pathway database. Availability: The tool is available on http://csovalidator.csml.org. Contact: masao@hgc.jp
format Online
Article
Text
id pubmed-3157922
institution National Center for Biotechnology Information
language English
publishDate 2011
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-31579222011-08-18 CSO validator: improving manual curation workflow for biological pathways Jeong, Euna Nagasaki, Masao Ikeda, Emi Sekiya, Yayoi Saito, Ayumu Miyano, Satoru Bioinformatics Applications Note Summary: Manual curation and validation of large-scale biological pathways are required to obtain high-quality pathway databases. In a typical curation process, model validation and model update based on appropriate feedback are repeated and requires considerable cooperation of scientists. We have developed a CSO (Cell System Ontology) validator to reduce the repetition and time during the curation process. This tool assists in quickly obtaining agreement among curators and domain experts and in providing a consistent and accurate pathway database. Availability: The tool is available on http://csovalidator.csml.org. Contact: masao@hgc.jp Oxford University Press 2011-09-01 2011-07-08 /pmc/articles/PMC3157922/ /pubmed/21743062 http://dx.doi.org/10.1093/bioinformatics/btr395 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Jeong, Euna
Nagasaki, Masao
Ikeda, Emi
Sekiya, Yayoi
Saito, Ayumu
Miyano, Satoru
CSO validator: improving manual curation workflow for biological pathways
title CSO validator: improving manual curation workflow for biological pathways
title_full CSO validator: improving manual curation workflow for biological pathways
title_fullStr CSO validator: improving manual curation workflow for biological pathways
title_full_unstemmed CSO validator: improving manual curation workflow for biological pathways
title_short CSO validator: improving manual curation workflow for biological pathways
title_sort cso validator: improving manual curation workflow for biological pathways
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3157922/
https://www.ncbi.nlm.nih.gov/pubmed/21743062
http://dx.doi.org/10.1093/bioinformatics/btr395
work_keys_str_mv AT jeongeuna csovalidatorimprovingmanualcurationworkflowforbiologicalpathways
AT nagasakimasao csovalidatorimprovingmanualcurationworkflowforbiologicalpathways
AT ikedaemi csovalidatorimprovingmanualcurationworkflowforbiologicalpathways
AT sekiyayayoi csovalidatorimprovingmanualcurationworkflowforbiologicalpathways
AT saitoayumu csovalidatorimprovingmanualcurationworkflowforbiologicalpathways
AT miyanosatoru csovalidatorimprovingmanualcurationworkflowforbiologicalpathways

Ejemplares similares