publication . Article . 2016

SciData: a data model and ontology for semantic representation of scientific data

Chalk, Stuart J.;
Open Access
  • Published: 14 Oct 2016
Abstract
With the move toward global, Internet enabled science there is an inherent need to capture, store, aggregate and search scientific data across a large corpus of heterogeneous data silos. As a result, standards development is needed to create an infrastructure capable of representing the diverse nature of scientific data. This paper describes a fundamental data model for scientific data that can be applied to data currently stored in any format, and an associated ontology that affords semantic representation of the structure of scientific data (and its metadata), upon which discipline specific semantics can be applied. Application of this data model to experiment...
Subjects
free text keywords: Physical and Theoretical Chemistry, Library and Information Sciences, Computer Graphics and Computer-Aided Design, Computer Science Applications, Research Article, Science data, Semantic annotation, Ontology, JSON-LD, RDF, Scientific data model
Related Organizations
58 references, page 1 of 4

1.Chalk S (2016) SciData: a scientific data model. http://stuchalk.github.io/scidata/. Accessed 1 March 2016

Bird, CL, Willoughby, C, Coles, SJ, Frey, JG. Data curation issues in the chemical sciences. Inf Stand Q. 2013; 25 (3): 4-12 [OpenAIRE] [DOI]

3.Murray-Rust P (2010) What is scientific data? http://blogs.ch.cam.ac.uk/pmr/2010/07/25/pp01-what-is-scientific-data/. Accessed 1 March 2016

4.Hey T, Tansley S, Tolle K (2009) The fourth paradigm: data-intensive scientific discovery. ISBN: 978-0982544204. http://research.microsoft.com/en-us/collaboration/fourthparadigm/

5.W3C (2016) Resource Description Framework (RDF) The World Wide Web Consortium. http://www.w3.org/RDF/

6.W3C (2016) SPARQL query language for RDF The World Wide Web Consortium. http://www.w3.org/TR/rdf-sparql-query/. Accessed 1 March 2016

7.W3C (2016) JSON-LD 1.0: a JSON-based serialization for linked data. The World Wide Web Consortium. http://www.w3.org/TR/json-ld/ Accessed March 1, 2016

8.Fredrich T (2016) What is REST? http://www.restapitutorial.com/lessons/whatisrest.html. Accessed 23 June 2016

9.Lanthaler M, Gütl C (2012) On using JSON-LD to create evolvable RESTful services. In: Third international workshop on RESTful design, ACM, pp 25–32. http://dx.doi.org/10.1145/2307819.2307827

10.W3C (2016) JSON-LD playground http://json-ld.org/playground/. Accessed 1 March 2016

11.Gower B (1997) Scientific method: a historical and philosophical introduction. Routledge. ISBN: 978-0415122825. https://www.amazon.com/dp/0415122821

12.RSC (2016) Development of the periodic table http://www.rsc.org/periodic-table/history/about. Accessed 23 June 2016

13.EOL (2016) What is biological classification? http://eol.org/info/461. Accessed 23 June 2016

14.UCB (2016) Phylogenetic systematics, a.k.a. evolutionary trees: reading trees—a quick review. http://evolution.berkeley.edu/evolibrary/article/phylogenetics_02. Accessed 23 June 2016

Langacker, P. Grand unification. Scholarpedia. 2012; 7 (10): 11419 [OpenAIRE] [DOI]

58 references, page 1 of 4
Abstract
With the move toward global, Internet enabled science there is an inherent need to capture, store, aggregate and search scientific data across a large corpus of heterogeneous data silos. As a result, standards development is needed to create an infrastructure capable of representing the diverse nature of scientific data. This paper describes a fundamental data model for scientific data that can be applied to data currently stored in any format, and an associated ontology that affords semantic representation of the structure of scientific data (and its metadata), upon which discipline specific semantics can be applied. Application of this data model to experiment...
Subjects
free text keywords: Physical and Theoretical Chemistry, Library and Information Sciences, Computer Graphics and Computer-Aided Design, Computer Science Applications, Research Article, Science data, Semantic annotation, Ontology, JSON-LD, RDF, Scientific data model
Related Organizations
58 references, page 1 of 4

1.Chalk S (2016) SciData: a scientific data model. http://stuchalk.github.io/scidata/. Accessed 1 March 2016

Bird, CL, Willoughby, C, Coles, SJ, Frey, JG. Data curation issues in the chemical sciences. Inf Stand Q. 2013; 25 (3): 4-12 [OpenAIRE] [DOI]

3.Murray-Rust P (2010) What is scientific data? http://blogs.ch.cam.ac.uk/pmr/2010/07/25/pp01-what-is-scientific-data/. Accessed 1 March 2016

4.Hey T, Tansley S, Tolle K (2009) The fourth paradigm: data-intensive scientific discovery. ISBN: 978-0982544204. http://research.microsoft.com/en-us/collaboration/fourthparadigm/

5.W3C (2016) Resource Description Framework (RDF) The World Wide Web Consortium. http://www.w3.org/RDF/

6.W3C (2016) SPARQL query language for RDF The World Wide Web Consortium. http://www.w3.org/TR/rdf-sparql-query/. Accessed 1 March 2016

7.W3C (2016) JSON-LD 1.0: a JSON-based serialization for linked data. The World Wide Web Consortium. http://www.w3.org/TR/json-ld/ Accessed March 1, 2016

8.Fredrich T (2016) What is REST? http://www.restapitutorial.com/lessons/whatisrest.html. Accessed 23 June 2016

9.Lanthaler M, Gütl C (2012) On using JSON-LD to create evolvable RESTful services. In: Third international workshop on RESTful design, ACM, pp 25–32. http://dx.doi.org/10.1145/2307819.2307827

10.W3C (2016) JSON-LD playground http://json-ld.org/playground/. Accessed 1 March 2016

11.Gower B (1997) Scientific method: a historical and philosophical introduction. Routledge. ISBN: 978-0415122825. https://www.amazon.com/dp/0415122821

12.RSC (2016) Development of the periodic table http://www.rsc.org/periodic-table/history/about. Accessed 23 June 2016

13.EOL (2016) What is biological classification? http://eol.org/info/461. Accessed 23 June 2016

14.UCB (2016) Phylogenetic systematics, a.k.a. evolutionary trees: reading trees—a quick review. http://evolution.berkeley.edu/evolibrary/article/phylogenetics_02. Accessed 23 June 2016

Langacker, P. Grand unification. Scholarpedia. 2012; 7 (10): 11419 [OpenAIRE] [DOI]

58 references, page 1 of 4
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