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ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies

The concept of open data has been gaining traction as a mechanism to increase data use, ensure that data are preserved over time, and accelerate discovery. While epidemiology data sets are increasingly deposited in databases and repositories, barriers to access still remain. ClinEpiDB was constructe...

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Autores principales: Ruhamyankaka, Emmanuel, Brunk, Brian P., Dorsey, Grant, Harb, Omar S., Helb, Danica A., Judkins, John, Kissinger, Jessica C., Lindsay, Brianna, Roos, David S., San, Emmanuel James, Stoeckert, Christian J., Zheng, Jie, Tomko, Sheena Shah
Formato: Online Artículo Texto
Lenguaje:English
Publicado: F1000 Research Limited 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6993508/
https://www.ncbi.nlm.nih.gov/pubmed/32047873
http://dx.doi.org/10.12688/gatesopenres.13087.2
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author Ruhamyankaka, Emmanuel
Brunk, Brian P.
Dorsey, Grant
Harb, Omar S.
Helb, Danica A.
Judkins, John
Kissinger, Jessica C.
Lindsay, Brianna
Roos, David S.
San, Emmanuel James
Stoeckert, Christian J.
Zheng, Jie
Tomko, Sheena Shah
author_facet Ruhamyankaka, Emmanuel
Brunk, Brian P.
Dorsey, Grant
Harb, Omar S.
Helb, Danica A.
Judkins, John
Kissinger, Jessica C.
Lindsay, Brianna
Roos, David S.
San, Emmanuel James
Stoeckert, Christian J.
Zheng, Jie
Tomko, Sheena Shah
author_sort Ruhamyankaka, Emmanuel
collection PubMed
description The concept of open data has been gaining traction as a mechanism to increase data use, ensure that data are preserved over time, and accelerate discovery. While epidemiology data sets are increasingly deposited in databases and repositories, barriers to access still remain. ClinEpiDB was constructed as an open-access online resource for clinical and epidemiologic studies by leveraging the extensive web toolkit and infrastructure of the Eukaryotic Pathogen Database Resources (EuPathDB; a collection of databases covering 170+ eukaryotic pathogens, relevant related species, and select hosts) combined with a unified semantic web framework. Here we present an intuitive point-and-click website that allows users to visualize and subset data directly in the ClinEpiDB browser and immediately explore potential associations. Supporting study documentation aids contextualization, and data can be downloaded for advanced analyses. By facilitating access and interrogation of high-quality, large-scale data sets, ClinEpiDB aims to spur collaboration and discovery that improves global health.
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spelling pubmed-69935082020-02-10 ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies Ruhamyankaka, Emmanuel Brunk, Brian P. Dorsey, Grant Harb, Omar S. Helb, Danica A. Judkins, John Kissinger, Jessica C. Lindsay, Brianna Roos, David S. San, Emmanuel James Stoeckert, Christian J. Zheng, Jie Tomko, Sheena Shah Gates Open Res Software Tool Article The concept of open data has been gaining traction as a mechanism to increase data use, ensure that data are preserved over time, and accelerate discovery. While epidemiology data sets are increasingly deposited in databases and repositories, barriers to access still remain. ClinEpiDB was constructed as an open-access online resource for clinical and epidemiologic studies by leveraging the extensive web toolkit and infrastructure of the Eukaryotic Pathogen Database Resources (EuPathDB; a collection of databases covering 170+ eukaryotic pathogens, relevant related species, and select hosts) combined with a unified semantic web framework. Here we present an intuitive point-and-click website that allows users to visualize and subset data directly in the ClinEpiDB browser and immediately explore potential associations. Supporting study documentation aids contextualization, and data can be downloaded for advanced analyses. By facilitating access and interrogation of high-quality, large-scale data sets, ClinEpiDB aims to spur collaboration and discovery that improves global health. F1000 Research Limited 2020-04-06 /pmc/articles/PMC6993508/ /pubmed/32047873 http://dx.doi.org/10.12688/gatesopenres.13087.2 Text en Copyright: © 2020 Ruhamyankaka E et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software Tool Article
Ruhamyankaka, Emmanuel
Brunk, Brian P.
Dorsey, Grant
Harb, Omar S.
Helb, Danica A.
Judkins, John
Kissinger, Jessica C.
Lindsay, Brianna
Roos, David S.
San, Emmanuel James
Stoeckert, Christian J.
Zheng, Jie
Tomko, Sheena Shah
ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title_full ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title_fullStr ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title_full_unstemmed ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title_short ClinEpiDB: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
title_sort clinepidb: an open-access clinical epidemiology database resource encouraging online exploration of complex studies
topic Software Tool Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6993508/
https://www.ncbi.nlm.nih.gov/pubmed/32047873
http://dx.doi.org/10.12688/gatesopenres.13087.2
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