{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,29]],"date-time":"2025-10-29T13:07:15Z","timestamp":1761743235717},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2708,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Due to the increasing number of text mining resources (tools and corpora) available to biologists, interoperability issues between these resources are becoming significant obstacles to using them effectively. UIMA, the Unstructured Information Management Architecture, is an open framework designed to aid in the construction of more interoperable tools. U-Compare is built on top of the UIMA framework, and provides both a concrete framework for out-of-the-box text mining and a sophisticated evaluation platform allowing users to run specific tools on any target text, generating both detailed statistics and instance-based visualizations of outputs. U-Compare is a joint project, providing the world's largest, and still growing, collection of UIMA-compatible resources. These resources, originally developed by different groups for a variety of domains, include many famous tools and corpora. U-Compare can be launched straight from the web, without needing to be manually installed. All U-Compare components are provided ready-to-use and can be combined easily via a drag-and-drop interface without any programming. External UIMA components can also simply be mixed with U-Compare components, without distinguishing between locally and remotely deployed resources.<\/jats:p>\n               <jats:p>Availability: \u00a0http:\/\/u-compare.org\/<\/jats:p>\n               <jats:p>Contact: \u00a0kano@is.s.u-tokyo.ac.jp<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp289","type":"journal-article","created":{"date-parts":[[2009,5,5]],"date-time":"2009-05-05T01:06:55Z","timestamp":1241485615000},"page":"1997-1998","source":"Crossref","is-referenced-by-count":67,"title":["U-Compare: share and compare text mining tools with UIMA"],"prefix":"10.1093","volume":"25","author":[{"given":"Yoshinobu","family":"Kano","sequence":"first","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"suffix":"Jr","given":"William A.","family":"Baumgartner","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"given":"Luke","family":"McCrohon","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"given":"Sophia","family":"Ananiadou","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"},{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"given":"K. Bretonnel","family":"Cohen","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"given":"Lawrence","family":"Hunter","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]},{"given":"Jun'ichi","family":"Tsujii","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"},{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"},{"name":"1 Department of Computer Science, University of Tokyo Hongo 7-3-1, Bunkyo-ku, Tokyo, 113-0033 Japan, 2 Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, CO, USA, 3 School of Computer Science, University of Manchester and 4 National Centre for Text Mining, 131 Princess St., M1 7DN, UK"}]}],"member":"286","published-online":{"date-parts":[[2009,5,4]]},"reference":[{"key":"2023013112053054800_B1","doi-asserted-by":"crossref","first-page":"571","DOI":"10.1016\/j.tibtech.2006.10.002","article-title":"Text mining and its potential applications in systems biology","volume":"24","author":"Ananiadou","year":"2006","journal-title":"Trends Biotechnol"},{"key":"2023013112053054800_B2","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1747-5333-3-1","article-title":"An open-source framework for large-scale, flexible evaluation of biomedical text mining systems","volume":"3","author":"Baumgartner","year":"2008","journal-title":"J. Biomed. Discov. Collab"},{"key":"2023013112053054800_B3","first-page":"RC24122","article-title":"Towards an interoperability standard for text and multi-modal analytics","author":"Ferrucci","year":"2006","journal-title":"IBM Res. Rep."},{"key":"2023013112053054800_B4","first-page":"1","article-title":"An overview of JCoRe, the JULIE lab UIMA component repository","volume-title":"Proceedings of LREC'08 Workshop, Towards Enhanced Interoperability for Large HLT Systems","author":"Hahn","year":"2008"},{"key":"2023013112053054800_B5","first-page":"616","article-title":"Filling the gaps between tools and users: a tool comparator, using protein-protein interaction as an example","volume":"13","author":"Kano","year":"2008","journal-title":"Proc. Pac. Symp. Biocomput."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/25\/15\/1997\/48994470\/bioinformatics_25_15_1997.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/25\/15\/1997\/48994470\/bioinformatics_25_15_1997.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,31]],"date-time":"2023-01-31T21:21:17Z","timestamp":1675200077000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/25\/15\/1997\/210992"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,5,4]]},"references-count":5,"journal-issue":{"issue":"15","published-print":{"date-parts":[[2009,8,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btp289","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2009,8,1]]},"published":{"date-parts":[[2009,5,4]]}}}