{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,25]],"date-time":"2026-06-25T01:38:08Z","timestamp":1782351488014,"version":"3.54.5"},"reference-count":28,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2010,8,31]],"date-time":"2010-08-31T00:00:00Z","timestamp":1283212800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2010,12]]},"DOI":"10.1186\/1471-2105-11-441","type":"journal-article","created":{"date-parts":[[2010,8,31]],"date-time":"2010-08-31T18:15:04Z","timestamp":1283278504000},"source":"Crossref","is-referenced-by-count":42,"title":["Relations as patterns: bridging the gap between OBO and OWL"],"prefix":"10.1186","volume":"11","author":[{"given":"Robert","family":"Hoehndorf","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anika","family":"Oellrich","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michel","family":"Dumontier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Janet","family":"Kelso","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dietrich","family":"Rebholz-Schuhmann","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Heinrich","family":"Herre","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2010,8,31]]},"reference":[{"key":"3898_CR1","volume-title":"Tech. rep","author":"I Horrocks","year":"2007","unstructured":"Horrocks I: OBO Flat File Format Syntax and Semantics and Mapping to OWL Web Ontology Language. Tech. rep University of Manchester; 2007. [\n                    http:\/\/www.cs.man.ac.uk\/~horrocks\/obo\/\n                    \n                  ]"},{"key":"3898_CR2","volume-title":"Nature Genetics","author":"M Ashburner","year":"2000","unstructured":"Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry MJ, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Tarver LI, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G: Gene ontology: tool for the unification of biology. Nature Genetics 2000., 25:"},{"issue":"11","key":"3898_CR3","doi-asserted-by":"publisher","first-page":"1251","DOI":"10.1038\/nbt1346","volume":"25","author":"B Smith","year":"2007","unstructured":"Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, Goldberg LJ, Eilbeck K, Ireland A, Mungall CJ, Leontis N, Serra PR, Ruttenberg A, Sansone SA, Scheuermann RH, Shah N, Whetzel PL, Lewis S: The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotech 2007, 25(11):1251\u20131255. 10.1038\/nbt1346","journal-title":"Nat Biotech"},{"issue":"14","key":"3898_CR4","doi-asserted-by":"publisher","first-page":"1868","DOI":"10.1093\/bioinformatics\/btm258","volume":"23","author":"DA Moreira","year":"2007","unstructured":"Moreira DA, Musen MA: OBO to OWL: a protege OWL tab to read\/save OBO ontologies. Bioinformatics 2007, 23(14):1868\u20131870. 10.1093\/bioinformatics\/btm258","journal-title":"Bioinformatics"},{"key":"3898_CR5","volume-title":"Proceedings of OWL: Experiences and Directions 2007 (OWLED-2007)","author":"C Golbreich","year":"2007","unstructured":"Golbreich C, Horrocks I: The OBO to OWL mapping, GO to OWL 1.1! In Proceedings of OWL: Experiences and Directions 2007 (OWLED-2007) Edited by: Golbreich C, Kalyanpur A, Parsia B. 2007. CEUR-WS.org CEUR-WS.org"},{"key":"3898_CR6","volume-title":"Tech. rep","author":"SH Tirmizi","year":"2008","unstructured":"Tirmizi SH, Miranker D: OBO2OWL: Roundtrip between OBO and OWL. Tech. rep The University of Texas at Austin; 2008. [\n                    ftp:\/\/ftp.cs.utexas.edu\/pub\/techreports\/tr06\u201347.pdf\n                    \n                  ]"},{"key":"3898_CR7","doi-asserted-by":"crossref","unstructured":"Smith B, Ceusters W, Klagges B, Kohler J, Kumar A, Lomax J, Mungall C, Neuhaus F, Rector AL, Rosse C: Relations in biomedical ontologies. Genome Biol 2005., 6(5): 10.1186\/gb-2005-6-5-r46","DOI":"10.1186\/gb-2005-6-5-r46"},{"key":"3898_CR8","volume-title":"Proc of the 2006 OWL Experiences and Directions Workshop (OWL-ED2006)","author":"M Horridge","year":"2006","unstructured":"Horridge M, Drummond N, Goodwin J, Rector A, Stevens R, Wang H: The Manchester OWL Syntax. Proc of the 2006 OWL Experiences and Directions Workshop (OWL-ED2006) 2006."},{"key":"3898_CR9","doi-asserted-by":"publisher","first-page":"377","DOI":"10.1186\/1471-2105-8-377","volume":"8","author":"R Hoehndorf","year":"2007","unstructured":"Hoehndorf R, Loebe F, Kelso J, Herre H: Representing default knowledge in biomedical ontologies: Application to the integration of anatomy and phenotype ontologies. BMC Bioinformatics 2007, 8: 377. 10.1186\/1471-2105-8-377","journal-title":"BMC Bioinformatics"},{"key":"3898_CR10","first-page":"741","volume":"124","author":"W Ceusters","year":"2006","unstructured":"Ceusters W, Elkin P, Smith B: Referent Tracking: The Problem of Negative Findings. Studies in health technology and informatics 2006, 124: 741\u2013746.","journal-title":"Studies in health technology and informatics"},{"key":"3898_CR11","volume-title":"Language, Proof and Logic","author":"J Barwise","year":"2002","unstructured":"Barwise J, Etchemendy J: Language, Proof and Logic. Center for the Study of Language and Inf; 2002."},{"key":"3898_CR12","volume-title":"Tech rep. W3C","author":"B Motik","year":"2009","unstructured":"Motik B, Patel-Schneider PF, Parsia B: OWL 2 Web Ontology Language Structural Specification and Functional-Style Syntax. Tech rep. W3C 2009."},{"key":"3898_CR13","first-page":"71","volume-title":"Basic considerations for improving interoperability between ontology-based biological information systems","author":"R Hoehndorf","year":"2009","unstructured":"Hoehndorf R:Basic considerations for improving interoperability between ontology-based biological information systems. University of Leipzig; 2009, chap. 4.1: 71\u201380. [\n                    http:\/\/leechuck.de\/thesis.pdf\n                    \n                  ]"},{"key":"3898_CR14","volume-title":"Proceedings of OWLEd 2007: Third International Workshop on OWL Experiences and Directions","author":"M Horridge","year":"2007","unstructured":"Horridge M, Bechhofer S, Noppens O: Igniting the OWL 1.1 Touch Paper: The OWL API. Proceedings of OWLEd 2007: Third International Workshop on OWL Experiences and Directions 2007."},{"key":"3898_CR15","volume-title":"OBO2OWL Conversion Project","author":"R Hoehndorf","year":"2010","unstructured":"Hoehndorf R:OBO2OWL Conversion Project. 2010. [\n                    http:\/\/bioonto.de\/obo2owl\n                    \n                  ]"},{"key":"3898_CR16","doi-asserted-by":"crossref","first-page":"165","DOI":"10.1613\/jair.2811","volume":"36","author":"B Motik","year":"2009","unstructured":"Motik B, Shearer R, Horrocks I: Hypertableau Reasoning for Description Logics. Journal of Artificial Intelligence Research 2009, 36: 165\u2013228.","journal-title":"Journal of Artificial Intelligence Research"},{"issue":"1","key":"3898_CR17","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1186\/2041-1480-1-4","volume":"1","author":"R Hoehndorf","year":"2010","unstructured":"Hoehndorf R, Ngomo ACN, Kelso J: Applying the functional abnormality ontology pattern to anatomical functions. J Biomed Semantics 2010, 1(1):4. 10.1186\/2041-1480-1-4","journal-title":"J Biomed Semantics"},{"key":"3898_CR18","first-page":"31","volume":"3","author":"S Schulz","year":"2009","unstructured":"Schulz S, Stenzhorn H, Boeker M, Smith B: Strengths and limitations of formal ontologies in the biomedical domain. RECIIS - Electronic Journal in Communication, Information and Innovation in Health 2009, 3: 31\u201345.","journal-title":"RECIIS - Electronic Journal in Communication, Information and Innovation in Health"},{"key":"3898_CR19","volume-title":"PhD thesis","author":"P Burek","year":"2006","unstructured":"Burek P: Ontology of Functions. PhD thesis. University of Leipzig, Institute of Informatics (IfI); 2006."},{"key":"3898_CR20","volume-title":"Proceedings of Bio-Ontologies 2009: Knowledge in Biology","author":"R Hoehndorf","year":"2009","unstructured":"Hoehndorf R, Kelso J, Herre H: Contributions to the formal ontology of functions and dispositions: An application of non-monotonic reasoning. Proceedings of Bio-Ontologies 2009: Knowledge in Biology 2009."},{"key":"3898_CR21","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2005-6-2-r21","volume-title":"Genome Biology","author":"J Bard","year":"2005","unstructured":"Bard J, Rhee SY, Ashburner M: An ontology for cell types. Genome Biology 2005., 6(2): 10.1186\/gb-2005-6-2-r21"},{"key":"3898_CR22","volume-title":"Journal of biomedical informatics","author":"P Topalis","year":"2010","unstructured":"Topalis P, Dialynas E, Mitraka E, Deliyanni E, Siden-Kiamos I, Louis C: A set of ontologies to drive tools for the control of vector-borne diseases. Journal of biomedical informatics 2010."},{"key":"3898_CR23","volume-title":"Genome Biology","author":"K Eilbeck","year":"2005","unstructured":"Eilbeck K, Lewis SE, Mungall CJ, Yandell M, Stein L, Durbin R, Ashburner M: The Sequence Ontology: A tool for the unification of genome annotations. Genome Biology 2005., 6(R55):"},{"key":"3898_CR24","volume-title":"Journal of Biomedical Informatics","author":"CJ Mungall","year":"2010","unstructured":"Mungall CJ, Batchelor C, Eilbeck K: Evolution of the Sequence Ontology terms and relationships. Journal of Biomedical Informatics 2010."},{"key":"3898_CR25","volume-title":"Tech. rep. The Gene Ontology Project","author":"C Mungall","year":"2008","unstructured":"Mungall C, Day-Richter J: The OBO Flat File Format Specification, version 1.3 [DRAFT]. Tech. rep. The Gene Ontology Project 2008."},{"key":"3898_CR26","volume-title":"Tech. rep. The Gene Ontology Project","author":"C Mungall","year":"2009","unstructured":"Mungall C: OBO-Format and Obolog Specification (1.3) DRAFT. Tech. rep. The Gene Ontology Project 2009. [\n                    http:\/\/www.geneontology.org\/GO.format.obo-1_3.shtml\n                    \n                  ]"},{"key":"3898_CR27","volume-title":"Tech. rep. ISO International Standard","author":"ISO","year":"2007","unstructured":"ISO: Information technology - Common Logic (CL): a framework for a family of logic-based languages. Tech. rep. ISO International Standard 2007."},{"key":"3898_CR28","volume-title":"International Journal on Semantic Web and Information Systems","author":"TH Christian Bizer","year":"2009","unstructured":"Christian Bizer TH, Berners-Lee T: Linked Data - The Story So Far. International Journal on Semantic Web and Information Systems 2009, in press."}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-11-441.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-11-441\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-11-441.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T13:43:40Z","timestamp":1548164620000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-11-441"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,8,31]]},"references-count":28,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2010,12]]}},"alternative-id":["3898"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-11-441","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,8,31]]},"article-number":"441"}}