Sharing datasets of the COVID-19 epidemic in the Czech Republic

J 2022

Sharing datasets of the COVID-19 epidemic in the Czech Republic

KOMENDA, Martin, Jiří JARKOVSKÝ, Daniel KLIMEŠ, Petr PANOŠKA, Ondřej ŠANCA et. al.

Basic information

Original name

Sharing datasets of the COVID-19 epidemic in the Czech Republic

Authors

KOMENDA, Martin (203 Czech Republic, guarantor, belonging to the institution), Jiří JARKOVSKÝ (203 Czech Republic, belonging to the institution), Daniel KLIMEŠ (203 Czech Republic, belonging to the institution), Petr PANOŠKA (203 Czech Republic, belonging to the institution), Ondřej ŠANCA (203 Czech Republic), Jakub GREGOR (203 Czech Republic, belonging to the institution), Jan MUŽÍK (203 Czech Republic, belonging to the institution), Matěj KAROLYI (203 Czech Republic, belonging to the institution), Ondřej MÁJEK (203 Czech Republic, belonging to the institution), Milan BLAHA (203 Czech Republic, belonging to the institution), Barbora MACKOVA (203 Czech Republic), Jarmila RAZOVA (203 Czech Republic), Vera ADAMKOVA (203 Czech Republic), Vladimir CERNY (203 Czech Republic), Jan BLATNY (203 Czech Republic) and Ladislav DUŠEK (203 Czech Republic, belonging to the institution)

Edition

Plos one, San Francisco, Public Library of Science, 2022, 1932-6203

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

30230 Other clinical medicine subjects

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 3.700

RIV identification code

RIV/00216224:14110/22:00126154

Organization unit

Faculty of Medicine

DOI

http://dx.doi.org/10.1371/journal.pone.0267397

UT WoS

000795468200003

Keywords in English

COVID-19; datasets; Czech Republic

Abstract

V originále

At the time of the COVID-19 pandemic, providing access to data (properly optimised regarding personal data protection) plays a crucial role in providing the general public and media with up-to-date information. Open datasets also represent one of the means for evaluation of the pandemic on a global level. The primary aim of this paper is to describe the methodological and technical framework for publishing datasets describing characteristics related to the COVID-19 epidemic in the Czech Republic (epidemiology, hospital-based care, vaccination), including the use of these datasets in practice. Practical aspects and experience with data sharing are discussed. As a reaction to the epidemic situation, a new portal COVID-19: Current Situation in the Czech Republic (https://onemocneni-aktualne.mzcr.cz/covid-19)& nbsp;was developed and launched in March 2020 to provide a fully-fledged and trustworthy source of information for the public and media. The portal also contains a section for the publication of (i) public open datasets available for download in CSV and JSON formats and (ii) authorised-access-only section where the authorised persons can (through an online generated token) safely visualise or download regional datasets with aggregated data at the level of the individual municipalities and regions. The data are also provided to the local open data catalogue (covering only open data on healthcare, provided by the Ministry of Health) and to the National Catalogue of Open Data (covering all open data sets, provided by various authorities/publishers, and harversting all data from local catalogues). The datasets have been published in various authentication regimes and widely used by general public, scientists, public authorities and decision-makers. The total number of API calls since its launch in March 2020 to 15 December 2020 exceeded 13 million. The datasets have been adopted as an official and guaranteed source for outputs of third parties, including public authorities, non-governmental organisations, scientists and online news portals. Datasets currently published as open data meet the 3-star open data requirements, which makes them machine-readable and facilitates their further usage without restrictions. This is essential for making the data more easily understandable and usable for data consumers. In conjunction with the strategy of the MH in the field of data opening, additional datasets meeting the already implemented standards will be also released, both on COVID-19 related and unrelated topics.

Citovat

KOMENDA, Martin, Jiří JARKOVSKÝ, Daniel KLIMEŠ, Petr PANOŠKA, Ondřej ŠANCA, Jakub GREGOR, Jan MUŽÍK, Matěj KAROLYI, Ondřej MÁJEK, Milan BLAHA, Barbora MACKOVA, Jarmila RAZOVA, Vera ADAMKOVA, Vladimir CERNY, Jan BLATNY and Ladislav DUŠEK. Sharing datasets of the COVID-19 epidemic in the Czech Republic. Plos one. San Francisco: Public Library of Science, 2022, vol. 17, No 4, p. 1-15. ISSN 1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0267397.

@article{1863111,
   author = {Komenda, Martin and Jarkovský, Jiří and Klimeš, Daniel and Panoška, Petr and Šanca, Ondřej and Gregor, Jakub and Mužík, Jan and Karolyi, Matěj and Májek, Ondřej and Blaha, Milan and Mackova, Barbora and Razova, Jarmila and Adamkova, Vera and Cerny, Vladimir and Blatny, Jan and Dušek, Ladislav},
   article_location = {San Francisco},
   article_number = {4},
   doi = {http://dx.doi.org/10.1371/journal.pone.0267397},
   keywords = {COVID-19; datasets; Czech Republic},
   language = {eng},
   issn = {1932-6203},
   journal = {Plos one},
   title = {Sharing datasets of the COVID-19 epidemic in the Czech Republic},
   url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0267397},
   volume = {17},
   year = {2022}
}

TY  - JOUR
ID  - 1863111
AU  - Komenda, Martin - Jarkovský, Jiří - Klimeš, Daniel - Panoška, Petr - Šanca, Ondřej - Gregor, Jakub - Mužík, Jan - Karolyi, Matěj - Májek, Ondřej - Blaha, Milan - Mackova, Barbora - Razova, Jarmila - Adamkova, Vera - Cerny, Vladimir - Blatny, Jan - Dušek, Ladislav
PY  - 2022
TI  - Sharing datasets of the COVID-19 epidemic in the Czech Republic
JF  - Plos one
VL  - 17
IS  - 4
SP  - 1-15
EP  - 1-15
PB  - Public Library of Science
SN  - 19326203
KW  - COVID-19
KW  - datasets
KW  - Czech Republic
UR  - https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0267397
N2  - At the time of the COVID-19 pandemic, providing access to data (properly optimised regarding personal data protection) plays a crucial role in providing the general public and media with up-to-date information. Open datasets also represent one of the means for evaluation of the pandemic on a global level. The primary aim of this paper is to describe the methodological and technical framework for publishing datasets describing characteristics related to the COVID-19 epidemic in the Czech Republic (epidemiology, hospital-based care, vaccination), including the use of these datasets in practice. Practical aspects and experience with data sharing are discussed. As a reaction to the epidemic situation, a new portal COVID-19: Current Situation in the Czech Republic (https://onemocneni-aktualne.mzcr.cz/covid-19)& nbsp;was developed and launched in March 2020 to provide a fully-fledged and trustworthy source of information for the public and media. The portal also contains a section for the publication of (i) public open datasets available for download in CSV and JSON formats and (ii) authorised-access-only section where the authorised persons can (through an online generated token) safely visualise or download regional datasets with aggregated data at the level of the individual municipalities and regions. The data are also provided to the local open data catalogue (covering only open data on healthcare, provided by the Ministry of Health) and to the National Catalogue of Open Data (covering all open data sets, provided by various authorities/publishers, and harversting all data from local catalogues). The datasets have been published in various authentication regimes and widely used by general public, scientists, public authorities and decision-makers. The total number of API calls since its launch in March 2020 to 15 December 2020 exceeded 13 million. The datasets have been adopted as an official and guaranteed source for outputs of third parties, including public authorities, non-governmental organisations, scientists and online news portals. Datasets currently published as open data meet the 3-star open data requirements, which makes them machine-readable and facilitates their further usage without restrictions. This is essential for making the data more easily understandable and usable for data consumers. In conjunction with the strategy of the MH in the field of data opening, additional datasets meeting the already implemented standards will be also released, both on COVID-19 related and unrelated topics.
ER  -

KOMENDA, Martin, Jiří JARKOVSKÝ, Daniel KLIMEŠ, Petr PANOŠKA, Ondřej ŠANCA, Jakub GREGOR, Jan MUŽÍK, Matěj KAROLYI, Ondřej MÁJEK, Milan BLAHA, Barbora MACKOVA, Jarmila RAZOVA, Vera ADAMKOVA, Vladimir CERNY, Jan BLATNY and Ladislav DUŠEK. Sharing datasets of the COVID-19 epidemic in the Czech Republic. \textit{Plos one}. San Francisco: Public Library of Science, 2022, vol.~17, No~4, p.~1-15. ISSN~1932-6203. Available from: https://dx.doi.org/10.1371/journal.pone.0267397.

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