Open Access Open Access  Restricted Access Subscription or Fee Access

Integration Electronic Patients’ Records with Open Life Sciences Datasets Using Semantic Web Tools

Bassam Najeeb(1*), Bassel Al Khatib(2)

(1) aculty of Information Technology Engineering, Damascus University, Syrian Arab Republic
(2) Faculty of Information Technology Engineering, Damascus University and the Faculty of Informatics and Communication Engineering, Syrian Arab Republic
(*) Corresponding author


DOI: https://doi.org/10.15866/irecos.v11i5.9029

Abstract


Semantic Web and its related technologies such as linked data, provide a powerful infrastructure for integrating and publishing heterogeneous data as a Resource Description Framework (RDF). In particular, Linked Open Data (LOD) community project from the Wide Web Consortium (W3C) has published many life sciences open datasets such as drugs, genes, pathways, proteins and diseases. This is a powerful platform for life sciences, and we will obtain more benefits if we link it with real patient records from standardized Electronic Health Record Systems (EHR). In this paper, we present our approach to applying linked data principles for representing electronic patients’ records. Particularly, we focus on Malaria patient records, and link it to various LOD ontologies, in order to enable clinicians and researchers to make federated queries. Finally, we present opportunities and challenges for our approach.
Copyright © 2016 Praise Worthy Prize - All rights reserved.

Keywords


Electronic Health Record (EHR); Linked Open Data (LOD); Resource Description Framework (RDF); Semantic Web

Full Text:

PDF


References


Pradeep K. Sinha, Gaur Sunder, Prashant Bendale, Manisha Mantri, Atreya Dande, Electronic Health Record: Standards, Coding Systems, Frameworks, and Infrastructures (IEEE press, 2012).
http://dx.doi.org/10.1002/9781118479612

IHTSDO Working Group, SNOMED CT Starter Guide (IHTSDO , 2014).
http://dx.doi.org/10.1007/978-981-287-895-3_3

Antti Karjalainen, International Statistical Classification of Diseases and Related Health Problems, (World Health Organization, 1999).

Steven H. Woolf, The Meaning of Translational Research and Why It Matters, The American Medical Association (JAMIA), 299 (2), pp. 211-213, 2008.
http://dx.doi.org/10.1001/jama.2007.26

Richard Cyganiak, David Wood, Markus Lanthaler, RDF 1.1 Concepts and Abstract Syntax (W3C, 2014).

Bizer, C., T. Heath, T. Berners-Lee, Linked Data - The Story So Far, International Journal on Semantic Web and Information Systems (IJSWIS), 5 (3), pp. 1-22, 2009.
http://dx.doi.org/10.4018/jswis.2009081901

Randolph Barrows, Paul Clayton, Privacy Confidentiality and Electronic Medical Records, The American Medical Association (JAMIA), 3, pp. 139-148, 1996.
http://dx.doi.org/10.1136/jamia.1996.96236282

Burke Mamlin, Sara Armson, Introduction to OpenMRS (OpenMRS, 2014).

HIMSS Community, Electronic Health Records, Available at http://www.himss.org/library/ehr/.

John Quinn, Introduction to Health Level Seven International, (HL7, 2014).

Tom Heath, Christian Bizer, Linked Data: Evolving the Web into a Global Data Space (Morgan & Claypool, 2011).
http://dx.doi.org/10.2200/s00334ed1v01y201102wbe001

Dan Brickley, R.V. Guha, RDF Schema, (W3C, 2014).

Eric Prud, Andy Seaborne, SPARQL Query Language for RDF, (W3C, 2008).

The Linking Open Data cloud, Available at http://lod-cloud.net/

Warren A. Kibbe, Cesar Arze, Victor Felix, An expanded and updated database of human diseases for linking biomedical knowledge through disease data, Nucleic Acids Research Advance Access, 2014.
http://dx.doi.org/10.1093/nar/gku1011

Bernard Vatant, Geonames Ontology, Available at http://www.geonames.org/ontology/.

Michel Dumontier, Christopher JO Baker, The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery, Journal of Biomedical Semantics, 5:14, 2014.
http://dx.doi.org/10.1186/2041-1480-5-14

S. Das, S. Sundara, R. Cyganiak, R2RML: RDB to RDF Mapping Language, (W3C, 2012).

Virtuoso Universal Server, (Openlink, 2015), Available at http://virtuoso.openlinksw.com/dataspace/doc/dav/wiki/Main/.

Christian Bizer, Richard Cyganiak D2R Server – Publishing Relational Databases on the Semantic Web, Freie Universität Berlin, 2006.

Mohamed Sherif, Claus Stadler, Jens Lehmann, Simplified RDB2RDF Mapping, CEUR Workshop (CEUR), ISSN 1613-0073 2015.

Mapping Relational Data to RDF With Virtuoso, (Openlink, 2015), Available at:

World Health Organization, Factsheet World Malaria Report 2013, Available at http://www.who.int/malaria/media/world_malaria_report_2013/en/

Louhdi, M., Behja, H., El Alaoui, S., Hybrid Method for Automatic Ontology Building from Relational Database, (2013) International Review on Computers and Software (IRECOS), 8 (8), pp. 1801-1813.

Chris Bizer, Richard Cyganiak, Tom Heath, How to Publish Linked Data on The Web, (Freie Universität Berlin, 2007).


Refbacks

  • There are currently no refbacks.



Please send any question about this web site to info@praiseworthyprize.com
Copyright © 2005-2019 Praise Worthy Prize