MassGeneral Institute for Neurodegenerative Disease

Translating today's discoveries into tomorrow's cures

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Publications

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Corlosquet S, Delbru R, Clark T, Polleres A, Decker S. Produce and Consume Linked Data with Drupal [Internet]. In: 8th International Semantic Web Conference (ISWC 2009). Washington DC: 2009Available from: http://openspring.net/sites/openspring.net/files/corl-etal-2009iswc.pdf
Corlosquet S, R D, Clark T, Polleres A, Decker S. Produce and Consume Linked Data with Drupal! [Internet]. In: 8th International Semantic Web Conference (ISWC 2009); October 25-29, 2009, Washington DC. 2009Available from: http://openspring.net/sites/openspring.net/files/corl-etal-2009iswc.pdf
Comeau DC, Doğan RI, Ciccarese P, Cohen KB, Krallinger M, Leitner F, Lu Z, Peng Y, Rinaldi F, Torii M, Valencia A, Verspoor K, Wiegers TC, Wu CH, Wilbur WJ. BioC: A Minimalist Approach to Interoperability for Biomedical Text Processing. Database In Press;
Clark T, Goble C. The World-Wide Web. In: Dubitzky W, Wolkenhauer O, Cho K-H, Yokota H (Eds.), Encyclopedia of Systems Biology. Heidelberg, DE: Springer; 2013
Clark T, Ciccarese P, Goble C. Micropublications: a Semantic Model for Claims, Evidence, Arguments and Annotations in Biomedical Communications [Internet]. Journal of Biomedical Semantics Submitted;Available from: http://arxiv.org/abs/1305.3506
Clark T, Martin S, Liefeld T. Globally Distributed Object Identification for Biological Knowledgebases. Brief Bioinform 2004;5(1):59-70.
Clark T, Ciccarese P, Attwood T, de Waard A, Pettifer S. A Round-Trip to the Annotation Store: Open, Transferable Semantic Annotation of Biomedical Publications. In: Beyond the PDF, San Diego, 19-21 Jan 2011. 2011
Clark T, Kinoshita J. Alzforum and SWAN: The Present and Future of Scientific Web Communities. Brief Bioinform 2007;8(3):163-71.
Clark T. Collaborative and distributed biomedical applications. In: Dubitzky W, Wolkenhauer O, Cho K-H, Yokota H (Eds.), Encyclopedia of Systems Biology. Heidelberg, DE: Springer; 2013
Clark T. Knowledge Integration in Biomedicine: Technology and Community. Brief Bioinform 2007;
Ciccarese P, Soiland-Reyes S, Clark T. Web Annotation as a First Class Object. IEEE Internet Computing In Press;
Ciccarese P, Wu E, Wong G, Ocana M, Kinoshita J, Ruttenberg A, Clark T. The SWAN Biomedical Discourse Ontology. J Biomed Inform 2008;41(5):739-51.
Ciccarese P, Peroni S. The Collections Ontology: creating and handling collections in OWL 2 DL frameworks [Internet]. Semantic Web Journal In Press;Available from: http://www.semantic-web-journal.net/system/files/swj506.pdf
Ciccarese P, Ocana M, Castro LJael Garci, Das S, Clark T. An Open Annotation Ontology for Science on Web 3.0. J Biomed Semantics 2011;2 Suppl 2:S4.
Ciccarese P, Shotton D, Peroni S, Clark T. CiTO + SWAN: The Web Semantics of Bibliographic Records, Citations, Evidence and Discourse Relationships. [Internet]. Semantic Web Journal 2012;Available from: http://www.semantic-web-journal.net/system/files/swj175_1.pdf
Ciccarese P, Ocana M, Das S, Clark T. AO: An Open Annotation Ontology for Science on the Web. In: Bio-Ontologies 2010, July 9-10 2010, Boston MA. 2010
Ciccarese P, Ocana M, Clark T. Open semantic annotation of scientific publications using DOMEO. J Biomed Semantics 2012;3 Suppl 1:S1.
Ciccarese P, Wu E, Clark T. An Overview of the SWAN 1.0 Discourse Ontology [Internet]. In: Workshop on Health Care and Life Sciences Data Integration for the Semantic Web, WWW2007. 16th International World Wide Web Conference. Banff, Canada: 2007Available from: http://www2007.org/workshops/paper_145.pdf
Ciccarese P, Ocana M, Clark T. DOMEO: a web-based tool for semantic annotation of online documents. In: Bio-Ontologies 2011, July 15-16, Vienna Austria. 2011
Cases M, Furlong LI, Albanell J, Altman RB, Bellazzi R, Boyer S, Brand A, Brookes AJ, Brunak S, Clark TW, Gea J, Ghazal P, Graf N, Guigó R, Klein TE, López-Bigas N, Maojo V, Mons B, Musen M, Oliveira JL, Rowe A, Ruch P, Shabo A, Shortliffe EH, Valencia A, van der Lei J, Mayer MA, Sanz F. Improving data and knowledge management to better integrate health care and research. J Intern Med 2013;274(4):321-8.
Carusi A, Clark T, M Marshall S. Web Semantics in Action: Web 3.0 in e-Science. In: 5th IEEE International Conference on e-Science. Oxford, UK: 2009
Cantuti-Castelvetri I, Keller-McGandy C, Bouzou B, Asteris G, Clark T, Frosch MP, Standaert DG. Effects of Gender on Nigral Gene Expression and Parkinson Disease. Neurobiol Dis 2007;26(3):606-14.