{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,28]],"date-time":"2025-10-28T19:22:47Z","timestamp":1761679367844,"version":"build-2065373602"},"reference-count":31,"publisher":"Institution of Engineering and Technology (IET)","issue":"2","license":[{"start":{"date-parts":[[2018,4,1]],"date-time":"2018-04-01T00:00:00Z","timestamp":1522540800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"content-domain":{"domain":["ietresearch.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["IET Software"],"published-print":{"date-parts":[[2018,4]]},"abstract":"<jats:p>\n                    Publishing, analysing or properly accessing the abundant information resulting largely from experimental studies in the biomedical domain are current challenges for the research community. Problems with the extraction of relevant information, redundant data, and lack of associations or provenance are good examples of the main concerns. The innovative nanopublication publishing strategy tries to overcome these issues by representing the essential pieces of publishable information on the Semantic Web. However, existing methods to create these Resource Description Framework\u2010based data snippets are based on complex scripting procedures, hindering their use by the community. Therefore, novel and automated strategies are needed to explore the evident value of nanopublications and to enable data attribution mechanisms, an important feature for data owners. To solve these challenges, the authors introduce the second generation of the COEUS open\u2010source application framework (\n                    <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/bioinformatics.ua.pt\/coeus\/\">http:\/\/bioinformatics.ua.pt\/coeus\/<\/jats:ext-link>\n                    ), an automated platform to integrate heterogeneous scientific outcomes into nanopublications. This results in seamless integration, making data accessible and citable at the same time. No additional scripting methods are needed. A validation of a nanopublishing pipeline is described to demonstrate the system functionalities, integrating and publishing common biomedical achievements into the Semantic Web ecosystem.\n                  <\/jats:p>","DOI":"10.1049\/iet-sen.2016.0325","type":"journal-article","created":{"date-parts":[[2017,12,4]],"date-time":"2017-12-04T21:22:53Z","timestamp":1512422573000},"page":"136-141","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["COEUS 2.0: automated platform to integrate and publish biomedical data as nanopublications"],"prefix":"10.1049","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3306-0195","authenticated-orcid":false,"given":"Pedro","family":"Sernadela","sequence":"first","affiliation":[{"name":"DETI\/IEETA Universidade de Aveiro Campus Universit\u00e1rio de Santiago Aveiro Portugal"}]},{"given":"Jos\u00e9 Lu\u00eds","family":"Oliveira","sequence":"additional","affiliation":[{"name":"DETI\/IEETA Universidade de Aveiro Campus Universit\u00e1rio de Santiago Aveiro Portugal"}]}],"member":"265","published-online":{"date-parts":[[2018,4]]},"reference":[{"key":"e_1_2_8_2_1","doi-asserted-by":"publisher","DOI":"10.1197\/jamia.M2114"},{"key":"e_1_2_8_3_1","doi-asserted-by":"publisher","DOI":"10.1002\/humu.22144"},{"volume-title":"Nanopublications*: the future of coping with information overload","year":"2010","author":"Velterop J.","key":"e_1_2_8_4_1"},{"key":"e_1_2_8_5_1","doi-asserted-by":"publisher","DOI":"10.1038\/scientificamerican0501-34"},{"key":"e_1_2_8_6_1","doi-asserted-by":"crossref","unstructured":"Groth P. Gibson A. Velterop J.: \u2018The anatomy of a nanopublication\u2019.Information Services and Use 2010","DOI":"10.3233\/ISU-2010-0613"},{"key":"e_1_2_8_7_1","unstructured":"Mons B. Velterop J.: \u2018Nano-publication in the e-science era\u2019.Work. Semant. Web Appl. Sci. Discourse 2009"},{"key":"e_1_2_8_8_1","unstructured":"Belhajjame K. Corcho O. Garijo D.: \u2018Workflow-centric research objects: first class citizens in scholarly discourse\u2019.Proc. ESWC2012 Workshop on the Future of Scholarly Communication in the Semantic Web 2012"},{"key":"e_1_2_8_9_1","first-page":"20","volume-title":"The research object suite of ontologies: sharing and exchanging research data and methods on the open Web","author":"Belhajjame K.","year":"2014"},{"key":"e_1_2_8_10_1","doi-asserted-by":"crossref","unstructured":"McCusker J. Lebo T.: \u2018Next generation cancer data discovery access and integration using prizms and nanopublications\u2019.Data Integration in the Life Sciences 2013 pp.105\u2013112","DOI":"10.1007\/978-3-642-39437-9_9"},{"key":"e_1_2_8_11_1","doi-asserted-by":"crossref","unstructured":"Sernadela P. Van der Horst E. Thompson M. et al.: \u2018A nanopublishing architecture for biomedical data\u2019.8th Int. Conf. Practical Applications of Computational Biology & Bioinformatics (PACBB 2014) 2014 vol. 294 pp.277\u2013284","DOI":"10.1007\/978-3-319-07581-5_33"},{"key":"e_1_2_8_12_1","doi-asserted-by":"publisher","DOI":"10.1186\/2041-1480-3-11"},{"key":"e_1_2_8_13_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jbi.2013.08.006"},{"key":"e_1_2_8_14_1","doi-asserted-by":"publisher","DOI":"10.1007\/s11606-014-2908-8"},{"issue":"1","key":"e_1_2_8_15_1","first-page":"83","article-title":"A knowledge federation architecture for rare disease patient registries and biobanks","volume":"1","author":"Sernadela P.","year":"2016","journal-title":"J. Inf. Syst. Eng. Manag."},{"key":"e_1_2_8_16_1","doi-asserted-by":"crossref","unstructured":"Monteiro E. Sernadela P. Matos S. et al.: \u2018Semantic knowledge base construction from radiology reports\u2019.Proc. of the 9th Int. Joint Conf. Biomedical Engineering Systems and Technologies 2016 pp.345\u2013352","DOI":"10.5220\/0005709503450352"},{"key":"e_1_2_8_17_1","doi-asserted-by":"crossref","unstructured":"Silva L. A. B. Costa C. Oliveira J. L.: \u2018Semantic search over DICOM repositories\u2019.2014 IEEE Int. Conf. Healthcare Informatics 2014 pp.238\u2013246","DOI":"10.1109\/ICHI.2014.41"},{"key":"e_1_2_8_18_1","doi-asserted-by":"crossref","unstructured":"Sernadela P. Lopes P. Campos D. et al.: \u2018A semantic layer for unifying and exploring biomedical document curation results\u2019.Bioinformatics and Biomedical Engineering 2015 pp.8\u201317","DOI":"10.1007\/978-3-319-16483-0_2"},{"key":"e_1_2_8_19_1","doi-asserted-by":"publisher","DOI":"10.1038\/ng.785"},{"key":"e_1_2_8_20_1","doi-asserted-by":"crossref","unstructured":"Harland L.: \u2018Open PHACTS: a semantic knowledge infrastructure for public and commercial drug discovery research\u2019.Knowledge Engineering and Knowledge Management 2012","DOI":"10.1007\/978-3-642-33876-2_1"},{"key":"e_1_2_8_21_1","doi-asserted-by":"publisher","DOI":"10.3233\/SW-150189"},{"key":"e_1_2_8_22_1","doi-asserted-by":"publisher","DOI":"10.3233\/SW-140149"},{"key":"e_1_2_8_23_1","doi-asserted-by":"publisher","DOI":"10.1186\/2041-1480-6-5"},{"key":"e_1_2_8_24_1","doi-asserted-by":"publisher","DOI":"10.1002\/humu.21438"},{"volume-title":"Underspecified scientific claims in nanopublications","year":"2012","author":"Kuhn T.","key":"e_1_2_8_25_1"},{"key":"e_1_2_8_26_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-38288-8_33"},{"key":"e_1_2_8_27_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-S3-S2"},{"key":"e_1_2_8_28_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jss.2013.08.030"},{"key":"e_1_2_8_29_1","doi-asserted-by":"publisher","DOI":"10.4018\/jswis.2009081901"},{"key":"e_1_2_8_30_1","unstructured":"Mitchell J. A. Aronson A. R. Mork J. G. et al.: \u2018Gene indexing: characterization and analysis of NLM's GeneRIFs\u2019.AMIA Annual Symp. Proc. January2003 pp.460\u2013464"},{"key":"e_1_2_8_31_1","doi-asserted-by":"crossref","unstructured":"Lu Z. Cohen K.B. Hunter L.: \u2018Finding GeneRIFs via gene ontology annotations\u2019.Pacific Symp. on Biocomputing January2006 pp.52\u201363","DOI":"10.1142\/9789812701626_0006"},{"key":"e_1_2_8_32_1","doi-asserted-by":"crossref","unstructured":"Lu Z. Cohen K. B. Hunter L.:\u2018GeneRIF quality assurance as summary revisionat\u2019.Pacific Symp. on Biocomputing January2007 pp.269\u2013280","DOI":"10.1142\/9789812772435_0026"}],"container-title":["IET Software"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1049\/iet-sen.2016.0325","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full-xml\/10.1049\/iet-sen.2016.0325","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/ietresearch.onlinelibrary.wiley.com\/doi\/pdf\/10.1049\/iet-sen.2016.0325","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,28]],"date-time":"2025-10-28T18:27:50Z","timestamp":1761676070000},"score":1,"resource":{"primary":{"URL":"https:\/\/ietresearch.onlinelibrary.wiley.com\/doi\/10.1049\/iet-sen.2016.0325"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,4]]},"references-count":31,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2018,4]]}},"alternative-id":["10.1049\/iet-sen.2016.0325"],"URL":"https:\/\/doi.org\/10.1049\/iet-sen.2016.0325","archive":["Portico"],"relation":{},"ISSN":["1751-8806"],"issn-type":[{"type":"print","value":"1751-8806"}],"subject":[],"published":{"date-parts":[[2018,4]]},"assertion":[{"value":"2016-12-16","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2017-11-15","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2018-04-01","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}