{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,7]],"date-time":"2025-03-07T01:45:42Z","timestamp":1741311942834,"version":"3.38.0"},"reference-count":3,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":1913,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.5"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2011,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>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.<\/jats:p><jats:p>Availability: The tool is available on http:\/\/csovalidator.csml.org.<\/jats:p><jats:p>Contact: \u00a0masao@hgc.jp<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr395","type":"journal-article","created":{"date-parts":[[2011,7,10]],"date-time":"2011-07-10T00:17:07Z","timestamp":1310257027000},"page":"2471-2472","source":"Crossref","is-referenced-by-count":3,"title":["CSO validator: improving manual curation workflow for biological pathways"],"prefix":"10.1093","volume":"27","author":[{"given":"Euna","family":"Jeong","sequence":"first","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]},{"given":"Masao","family":"Nagasaki","sequence":"additional","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]},{"given":"Emi","family":"Ikeda","sequence":"additional","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]},{"given":"Yayoi","family":"Sekiya","sequence":"additional","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]},{"given":"Ayumu","family":"Saito","sequence":"additional","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]},{"given":"Satoru","family":"Miyano","sequence":"additional","affiliation":[{"name":"Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan"}]}],"member":"286","published-online":{"date-parts":[[2011,7,8]]},"reference":[{"key":"2023012511532031200_B1","doi-asserted-by":"crossref","first-page":"623","DOI":"10.3233\/ISI-2007-00335","article-title":"Cell system ontology: representation for modeling, visualizing, and simulating biological pathways","volume":"7","author":"Jeong","year":"2007","journal-title":"In Silico Biol."},{"issue":"Suppl. 1","key":"2023012511532031200_B2","doi-asserted-by":"crossref","first-page":"S8","DOI":"10.1186\/1471-2105-12-S1-S8","article-title":"Ontology-based instance data validation for high-quality curated biological pathways","volume":"12","author":"Jeong","year":"2011","journal-title":"BMC Bioinformatics"},{"key":"2023012511532031200_B3","doi-asserted-by":"crossref","first-page":"196","DOI":"10.1186\/1471-2105-7-196","article-title":"A case study in pathway knowledgebase verification","volume":"7","author":"Racunas","year":"2006","journal-title":"BMC Bioinformatics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/27\/17\/2471\/48865148\/bioinformatics_27_17_2471.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/27\/17\/2471\/48865148\/bioinformatics_27_17_2471.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,7]],"date-time":"2025-03-07T01:19:02Z","timestamp":1741310342000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/27\/17\/2471\/223887"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2011,7,8]]},"references-count":3,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2011,9,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btr395","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"type":"electronic","value":"1367-4811"},{"type":"print","value":"1367-4803"}],"subject":[],"published-other":{"date-parts":[[2011,9,1]]},"published":{"date-parts":[[2011,7,8]]}}}