{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,26]],"date-time":"2025-10-26T14:38:53Z","timestamp":1761489533327},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"10","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,5,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Figures and tables in biomedical literature record vast amounts of important experiment results. In scientific papers, for example, quantitative trait locus (QTL) information is usually presented in tables. However, most of the popular text-mining methods focus on extracting knowledge from unstructured free text. As far as we know, there are no published works on mining tables in biomedical literature. In this article, we propose a method to extract QTL information from tables and plain text found in literature. Heterogeneous and complex tables were converted into a structured database, combined with information extracted from plain text. Our method could greatly reduce labor burdens involved with database curation.<\/jats:p>\n               <jats:p>Results: We applied our method on a soybean QTL database curation, from which 2278 records were extracted from 228 papers with a precision rate of 96.9% and a recall rate of 83.3%, F value for the method is 89.6%.<\/jats:p>\n               <jats:p>Availability and implementation: QTLMiner is available at www.soyomics.com\/qtlminer\/.<\/jats:p>\n               <jats:p>Contact: \u00a0yuanxh@iga.ac.cn<\/jats:p>","DOI":"10.1093\/bioinformatics\/btv016","type":"journal-article","created":{"date-parts":[[2015,1,14]],"date-time":"2015-01-14T02:18:45Z","timestamp":1421201925000},"page":"1689-1691","source":"Crossref","is-referenced-by-count":9,"title":["QTLMiner: QTL database curation by mining tables in literature"],"prefix":"10.1093","volume":"31","author":[{"given":"Jing","family":"Peng","sequence":"first","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"},{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xinyi","family":"Shi","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yiming","family":"Sun","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dongye","family":"Li","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Baohui","family":"Liu","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fanjiang","family":"Kong","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaohui","family":"Yuan","sequence":"additional","affiliation":[{"name":"1 College of Electronic and Information, Northeast Agricultural University, Harbin, China, 2School of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China and 3The Key Lab of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2015,1,12]]},"reference":[{"key":"2023020115445213900_btv016-B1","doi-asserted-by":"crossref","first-page":"D843","DOI":"10.1093\/nar\/gkp798","article-title":"SoyBase, the USDA-ARS soybean genetics and genomics database","volume":"38","author":"Grant","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"2023020115445213900_btv016-B2","doi-asserted-by":"crossref","first-page":"D1193","DOI":"10.1093\/nar\/gkt1110","article-title":"Gramene 2013: comparative plant genomics resources","volume":"42","author":"Monaco","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"2023020115445213900_btv016-B3","article-title":"Parsing with compositional vector grammars","volume-title":"Proceedings of ACL 2013","author":"Richard","year":"2013"},{"key":"2023020115445213900_btv016-B4","doi-asserted-by":"crossref","first-page":"I1","DOI":"10.1186\/1471-2105-11-S5-I1","article-title":"Highlights of the BioTM 2010 workshop on advances in bio text mining","volume":"11","author":"Thomas","year":"2010","journal-title":"BMC Bioinf."},{"key":"2023020115445213900_btv016-B5","first-page":"141","article-title":"Understanding tables on the web","volume":"7532","author":"Wang","year":"2012","journal-title":"LNCS"},{"key":"2023020115445213900_btv016-B6","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1145\/584931.584940","article-title":"A framework for web table mining","volume-title":"Proceedings of the International Workshop on Web Information and Data Management","author":"Yang","year":"2002"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/31\/10\/1689\/49012450\/bioinformatics_31_10_1689.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/31\/10\/1689\/49012450\/bioinformatics_31_10_1689.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T00:12:07Z","timestamp":1675296727000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/31\/10\/1689\/177318"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,1,12]]},"references-count":6,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2015,5,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btv016","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2015,5,15]]},"published":{"date-parts":[[2015,1,12]]}}}