ReDD-Observatory: Using the Web of Data for Evaluating the Research-Disease Disparity

The ReDD-Observatory is a project to evaluate the disparity between active areas of biomedical research and the global burden of disease using Linked Data and data-driven discovery.

Background

It is widely accepted that there is a large disparity between the availability of treatment options and the prevalence of diseases in the world, thus placing individuals in danger. This disparity is partially caused by the restricted access to information that would allow health- care and research policy makers to formulate more appropriate measures to mitigate this disparity. Specifically, this shortage of information is caused by the difficulty in reliably obtaining and integrating data regarding the disease burden for a given nation and the respective research investments.

In response to these challenges, the Linked Data paradigm provides a simple mechanism for publishing and interlinking structured information on the Web. In conjunction with the ever increasing data on diseases and healthcare research available as Linked Data, an opportunity is created to reduce this information gap that would allow for better policy in response to these disparities.

We present the ReDD-Observatory, an approach for evaluating the Research-Disease Disparity based on the interlinking and integrating of various biomedical data sources.

Methodology

The figure below provides a birds eye-view of the methodology involved in the ReDD-Observatory.

We first identified relevant datasets to be included that provided relevant information to evaluate the disparity. We not only consider the datasets already present as RDF but also those that are present in unstructured formats. These datasets are:

  1. LinkedCT - the RDF representation of ClinicalTrials.gov, which is the database of all clinical trials around the world.
  2. Bio2RDF's PubMed - the RDF representation of PubMed, which is a service of the US National Library of Medicine that includes bibliographic information and abstracts of over 19 million publications from MEDLINE and other life science journals.
  3. WHO's Global Health Observatory (GHO), which contains statistical information regarding the mortality and burden of disease classified according to the death and DALY (disability-adjusted life year) estimates grouped by countries and regions. However, since GHO is not available as Linked Data, as the next step we devised a method for representing unstructured data as RDF. We devised a plug-in in OntoWiki to represent statistical data from GHO as RDF. We used the Data Cube Vocabulary for this conversion. More information is present here. In order to ensure the completeness, conciseness and consistency for the selected datasets our next step is to assess the data quality of the datasets. The next challenging step is to interlink the datasets for a number of concepts such as (a) countries, (b) diseases and (c) publications. The assessment of the disparity is then performed with a number of parametrized SPARQL queries. We evaluate the results wrt. information quality and interlinking precision. As a consequence, we are, for the first time, able to provide reliable indicators for the extent of the research-disease disparity around the world in an semi- automated fashion, thus enabling healthcare professionals and policy makers to make more informed decisions.

Further Information

Current Team

Publications

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News

Five AKSW Papers at ESWC 2014 ( 2014-03-14T01:37:52+01:00 by Dr. Axel-C. Ngonga Ngomo)

2014-03-14T01:37:52+01:00 by Dr. Axel-C. Ngonga Ngomo

Hello World! We are very pleased to announce that five of our papers were accepted for presentation at ESWC 2014. These papers range from natural-language processing to the acquisition of temporal data. Read more about "Five AKSW Papers at ESWC 2014"

AKSW Colloquium “Current semantic web initiatives in the Netherlands” on Friday, March 14, Room P901 ( 2014-03-13T09:31:20+01:00 by Konrad Höffner)

2014-03-13T09:31:20+01:00 by Konrad Höffner

Current semantic web initiatives in the Netherlands: Heritage & Location, PiLOD 2.0 On Friday, March 14, at 10.00 a.m. in room P901, visiting researchers Tine van Nierop and Rein van ‘t Veer from the E&L will discuss, amongst several other semantic web initiatives in the Netherlands, two different projects: Heritage & Location (www.erfgoedenlocatie. Read more about "AKSW Colloquium “Current semantic web initiatives in the Netherlands” on Friday, March 14, Room P901"

AKSW Colloquium “Towards a Computer Algebra Semantic Social Network” on Monday, March 17 ( 2014-03-11T10:59:22+01:00 by Konrad Höffner)

2014-03-11T10:59:22+01:00 by Konrad Höffner

Towards a Computer Algebra Semantic Social Network On Monday, March 17th, 2014 at 1.30 – 2:30 p.m. in Room P702 (Paulinum), Prof. Dr. Read more about "AKSW Colloquium “Towards a Computer Algebra Semantic Social Network” on Monday, March 17"

AKSW Colloquium with Lemon – Lexicon Model for Ontologies on Wednesday, February 26 ( 2014-02-07T15:01:58+01:00 by Konrad Höffner)

2014-02-07T15:01:58+01:00 by Konrad Höffner

Lemon – Lexicon Model for Ontologies On Wednesday, Feb 26th, 2014, at 1.30 – 4:00 p.m. in Room P702 (Paulinum). Philipp Cimiano is the head of the Semantic Computing Group at Bielefeld University. He is also affiliated with the Cognitive Interaction Technology Excellence Cluster. Read more about "AKSW Colloquium with Lemon – Lexicon Model for Ontologies on Wednesday, February 26"

AKSW Colloquium with JavaScript Tools and Libraries Workshop on Monday, February 17 ( 2014-02-07T14:51:33+01:00 by Konrad Höffner)

2014-02-07T14:51:33+01:00 by Konrad Höffner

JavaScript Tools and Libraries Workshop On Mon, Feb 17th, 2014, 1.30 – 4:00 p.m. in Room P702 (Paulinum)  Claus Stadler and Patrick Westphal hold a  workshop to exchange knowledge and experiences concerning the software development with JavaScript. Read more about "AKSW Colloquium with JavaScript Tools and Libraries Workshop on Monday, February 17"