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

by (Editors: ) [BibTex of ]

News

AKSW internal group meeting @ Dessau ( 2014-10-23T02:07:29+02:00 EdgardMarx)

2014-10-23T02:07:29+02:00 EdgardMarx

Recently AKSW members were at the city of Dessau for an internal group meeting. The meeting took place between 8th and 10th of October, in the modern university of architecture of Bauhaus were we also stayed hosted. Bauhaus is located in the city of Dessau, about one hour from Leipzig. Read more about "AKSW internal group meeting @ Dessau"

AKSW at #ISWC2014. Come and join, talk and discuss with us! ( 2014-10-16T14:00:30+02:00 RicardoUsbeck)

2014-10-16T14:00:30+02:00 RicardoUsbeck

Hello AKSW Follower! We are very pleased to announce that nine of our papers were accepted for presentation at ISWC 2014. Read more about "AKSW at #ISWC2014. Come and join, talk and discuss with us!"

LIMES Version 0.6 RC4 ( 2014-10-07T00:49:53+02:00 by Dr. Axel-C. Ngonga Ngomo)

2014-10-07T00:49:53+02:00 by Dr. Axel-C. Ngonga Ngomo

It has been a while but that moment has arrived again. We are happy to announce a new release of the LIMES framework. This version implements novel geo-spatial measures (e.g., geographic mean) as well as string similarity measures (jaro, jaro-winkler, etc.). Moreover, we fixed some minor bugs (thanks for the bug reports). Read more about "LIMES Version 0.6 RC4"

AKSW Colloquium “Towards an Open Question Answering Architecture” conference pre-presentation on Monday, August 18 in P702 ( 2014-08-15T13:14:53+02:00 by Konrad Höffner)

2014-08-15T13:14:53+02:00 by Konrad Höffner

Towards an Open Question Answering Architecture On Monday, August 18 ,13.30, Edgard Marx, will give a pre-presentation of his Semantics’ conference talk about the accepted paper Towards an Open Question Answering Architecture. About the AKSW Colloquium This event is part of a series of events about Semantic Web technology. Please see http://wiki.aksw. Read more about "AKSW Colloquium “Towards an Open Question Answering Architecture” conference pre-presentation on Monday, August 18 in P702"

AKSW member will participate in ECAI 2014, Prague, Czech Republic ( 2014-08-15T10:09:23+02:00 RicardoUsbeck)

2014-08-15T10:09:23+02:00 RicardoUsbeck

Hello! The  21st European Conference  on Artificial Intelligence (ECAI) will be held in the city of Prague, Czech  Republic from 18th to 22nd August 2014. Various excellent papers on artificial intellegence, logic, rule mining and many more topics will be presented. Read more about "AKSW member will participate in ECAI 2014, Prague, Czech Republic"