Promoting High-Quality Data in OBIS: Insights from the OBIS Data Quality Assessment and Enhancement Project Team
The Ocean Biodiversity Information System (OBIS) (Klein et al. 2019) is a global database of marine biodiversity and associated environmental data, which provides critical information to researchers and policymakers worldwide. Ensuring the accuracy and consistency of the data in OBIS is essential fo...
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creator | Gan, Yi-Ming Perez Perez, Ruben Provoost, Pieter Benson, Abigail Peralta Brichtova, Ana Carolina Lawrence, Elizabeth Nicholls, John Konjarla, Johnny Sarafidou, Georgia Saeedi, Hanieh Lear, Dan Penzlin, Anke Wambiji, Nina Appeltans, Ward |
description | The Ocean Biodiversity Information System (OBIS) (Klein et al. 2019) is a global database of marine biodiversity and associated environmental data, which provides critical information to researchers and policymakers worldwide. Ensuring the accuracy and consistency of the data in OBIS is essential for its usefulness and value, not only to the scientific community but also to the science-policy interface. The OBIS Data Quality Assessment and Enhancement Project Team (QCPT), formed in 2019 by the OBIS steering group, aims to assess and enhance data quality. It has been working on three categories of activities for this purpose:
Data quality enhancement and management
The OBIS QCPT organized data laundry events to identify and address data quality issues of published OBIS datasets. Furthermore, individual OBIS nodes were invited to give their data-processing presentations in the monthly meetings to foster knowledge sharing and collaborative problem-solving focused on data quality. Data quality issues and solutions highlighted in the presentations and data laundry events were documented in a dedicated GitHub repository as GitHub issues. The solutions for data quality issues and marine-specific pre-publication quality control tools, designed to identify the data quality issues, were provided as feedback to the OBIS Capacity Development Task Team. These inputs were used to create training resources (see OBIS manual, upcoming OBIS training course hosted on OceanTeacher Global Academy) aimed at preventing these issues.
Standardization of OBIS data processing pipeline
As OBIS uses the Darwin Core standard (Wieczorek et al. 2012), the use of standardized tests and assertions in the data processing pipeline is encouraged. To achieve this, the OBIS QCPT aligned OBIS quality checks with a subset of core tests and assertions (Chapman et al. 2020) developed by the Biodiversity Information Standards (TDWG) Biodiversity Data Quality (BDQ) Task Group 2 (TG2) (Chapman et al. 2020) as tracked in this GitHub issue. Not all default parameters of the core tests and assertions are optimal for marine biodiversity data. The OBIS QCPT met monthly to determine suitable parameters for customizing the tests. The pipeline produces a data quality report for each dataset with quality flags that indicate potential data quality issues, enabling node managers and data providers to review the flagged records.
Community engagement
The OBIS QCPT led a survey among data users to gather insights i |
doi_str_mv | 10.3897/biss.7.112018 |
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Data quality enhancement and management
The OBIS QCPT organized data laundry events to identify and address data quality issues of published OBIS datasets. Furthermore, individual OBIS nodes were invited to give their data-processing presentations in the monthly meetings to foster knowledge sharing and collaborative problem-solving focused on data quality. Data quality issues and solutions highlighted in the presentations and data laundry events were documented in a dedicated GitHub repository as GitHub issues. The solutions for data quality issues and marine-specific pre-publication quality control tools, designed to identify the data quality issues, were provided as feedback to the OBIS Capacity Development Task Team. These inputs were used to create training resources (see OBIS manual, upcoming OBIS training course hosted on OceanTeacher Global Academy) aimed at preventing these issues.
Standardization of OBIS data processing pipeline
As OBIS uses the Darwin Core standard (Wieczorek et al. 2012), the use of standardized tests and assertions in the data processing pipeline is encouraged. To achieve this, the OBIS QCPT aligned OBIS quality checks with a subset of core tests and assertions (Chapman et al. 2020) developed by the Biodiversity Information Standards (TDWG) Biodiversity Data Quality (BDQ) Task Group 2 (TG2) (Chapman et al. 2020) as tracked in this GitHub issue. Not all default parameters of the core tests and assertions are optimal for marine biodiversity data. The OBIS QCPT met monthly to determine suitable parameters for customizing the tests. The pipeline produces a data quality report for each dataset with quality flags that indicate potential data quality issues, enabling node managers and data providers to review the flagged records.
Community engagement
The OBIS QCPT led a survey among data users to gather insights into OBIS data quality issues and bridge the gap between the current implementation and user expectations. The survey findings enabled OBIS to prioritize issues to be addressed, as summarized in Section 2.2.2 of the 11th OBIS Steering Group meeting report. In addition to engaging with data users, the OBIS QCPT also served as a platform to discuss questions related to the use of Darwin Core from the nodes and provided feedback for the term discussions.
In summary, the OBIS QCPT improves marine species data reliability and usability through transparent and participatory approaches, fostering continuous improvement. Collaborative efforts, standardized procedures, and knowledge sharing advance OBIS' mission of providing high quality biodiversity data for research, conservation, and ocean management.</description><identifier>ISSN: 2535-0897</identifier><identifier>EISSN: 2535-0897</identifier><identifier>DOI: 10.3897/biss.7.112018</identifier><language>eng</language><publisher>Sofia: Pensoft Publishers</publisher><subject>Biodiversity ; Capacity development ; Collaboration ; Community involvement ; Data processing ; Feedback ; Information management ; Knowledge sharing ; Laundry ; Problem solving ; Quality control ; Standardization ; Surveys ; Training</subject><ispartof>Biodiversity Information Science and Standards, 2023-09, Vol.7 (1)</ispartof><rights>COPYRIGHT 2023 Pensoft Publishers</rights><rights>2023. This work is licensed under https://creativecommons.org/share-your-work/public-domain/cc0/ (the “License”). Notwithstanding the ProQuest Terms and conditions, you may use this content in accordance with the terms of the License.</rights><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c1448-6f836c5a3ceeaa60bce6885c09908aca512c453b55e663976d92a3cf3a3676ca3</cites><orcidid>0000-0002-5304-941X ; 0000-0003-0830-9814 ; 0000-0002-4845-0241 ; 0000-0003-3181-0498 ; 0000-0001-7087-2646 ; 0000-0002-4391-107X ; 0000-0003-0974-3401 ; 0000-0002-5806-0837 ; 0000-0002-6677-2316 ; 0000-0003-2183-893X ; 0000-0002-3237-4547</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27901,27902</link.rule.ids></links><search><creatorcontrib>Gan, Yi-Ming</creatorcontrib><creatorcontrib>Perez Perez, Ruben</creatorcontrib><creatorcontrib>Provoost, Pieter</creatorcontrib><creatorcontrib>Benson, Abigail</creatorcontrib><creatorcontrib>Peralta Brichtova, Ana Carolina</creatorcontrib><creatorcontrib>Lawrence, Elizabeth</creatorcontrib><creatorcontrib>Nicholls, John</creatorcontrib><creatorcontrib>Konjarla, Johnny</creatorcontrib><creatorcontrib>Sarafidou, Georgia</creatorcontrib><creatorcontrib>Saeedi, Hanieh</creatorcontrib><creatorcontrib>Lear, Dan</creatorcontrib><creatorcontrib>Penzlin, Anke</creatorcontrib><creatorcontrib>Wambiji, Nina</creatorcontrib><creatorcontrib>Appeltans, Ward</creatorcontrib><title>Promoting High-Quality Data in OBIS: Insights from the OBIS Data Quality Assessment and Enhancement Project Team</title><title>Biodiversity Information Science and Standards</title><description>The Ocean Biodiversity Information System (OBIS) (Klein et al. 2019) is a global database of marine biodiversity and associated environmental data, which provides critical information to researchers and policymakers worldwide. Ensuring the accuracy and consistency of the data in OBIS is essential for its usefulness and value, not only to the scientific community but also to the science-policy interface. The OBIS Data Quality Assessment and Enhancement Project Team (QCPT), formed in 2019 by the OBIS steering group, aims to assess and enhance data quality. It has been working on three categories of activities for this purpose:
Data quality enhancement and management
The OBIS QCPT organized data laundry events to identify and address data quality issues of published OBIS datasets. Furthermore, individual OBIS nodes were invited to give their data-processing presentations in the monthly meetings to foster knowledge sharing and collaborative problem-solving focused on data quality. Data quality issues and solutions highlighted in the presentations and data laundry events were documented in a dedicated GitHub repository as GitHub issues. The solutions for data quality issues and marine-specific pre-publication quality control tools, designed to identify the data quality issues, were provided as feedback to the OBIS Capacity Development Task Team. These inputs were used to create training resources (see OBIS manual, upcoming OBIS training course hosted on OceanTeacher Global Academy) aimed at preventing these issues.
Standardization of OBIS data processing pipeline
As OBIS uses the Darwin Core standard (Wieczorek et al. 2012), the use of standardized tests and assertions in the data processing pipeline is encouraged. To achieve this, the OBIS QCPT aligned OBIS quality checks with a subset of core tests and assertions (Chapman et al. 2020) developed by the Biodiversity Information Standards (TDWG) Biodiversity Data Quality (BDQ) Task Group 2 (TG2) (Chapman et al. 2020) as tracked in this GitHub issue. Not all default parameters of the core tests and assertions are optimal for marine biodiversity data. The OBIS QCPT met monthly to determine suitable parameters for customizing the tests. The pipeline produces a data quality report for each dataset with quality flags that indicate potential data quality issues, enabling node managers and data providers to review the flagged records.
Community engagement
The OBIS QCPT led a survey among data users to gather insights into OBIS data quality issues and bridge the gap between the current implementation and user expectations. The survey findings enabled OBIS to prioritize issues to be addressed, as summarized in Section 2.2.2 of the 11th OBIS Steering Group meeting report. In addition to engaging with data users, the OBIS QCPT also served as a platform to discuss questions related to the use of Darwin Core from the nodes and provided feedback for the term discussions.
In summary, the OBIS QCPT improves marine species data reliability and usability through transparent and participatory approaches, fostering continuous improvement. Collaborative efforts, standardized procedures, and knowledge sharing advance OBIS' mission of providing high quality biodiversity data for research, conservation, and ocean management.</description><subject>Biodiversity</subject><subject>Capacity development</subject><subject>Collaboration</subject><subject>Community involvement</subject><subject>Data processing</subject><subject>Feedback</subject><subject>Information management</subject><subject>Knowledge sharing</subject><subject>Laundry</subject><subject>Problem solving</subject><subject>Quality control</subject><subject>Standardization</subject><subject>Surveys</subject><subject>Training</subject><issn>2535-0897</issn><issn>2535-0897</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><sourceid>BENPR</sourceid><recordid>eNpNkctOAjEUhidGEwm6dN_E9YztdHpzh3iBhESNum4OpQMlTAemZcHb-Cw-mZVh4ercvv-cnPxZdkNwQaUSd3MXQiEKQkpM5Fk2KBllOU6T83_5ZXYdwhpjXKqylFwOst1b1zZtdH6JJm65yt_3sHHxgB4hAnIevT5MP-7R1Ic0jAHViUZxZY_9Hjopfr5HIdgQGusjAr9AT34F3thjnY6srYno00JzlV3UsAn2-hSH2dfz0-d4ks9eX6bj0Sw3pKpkzmtJuWFAjbUAHM-N5VIyg5XCEgwwUpqK0TljlnOqBF-oMsE1BcoFN0CH2W2_d9u1u70NUa_bfefTSZ1eJ4JUSshEFT21hI3Vztdt7NJ2AwvbONN6W7vUHwnBlWK8wkmQ9wLTtSF0ttbbzjXQHTTB-s8J_eeEFrp3gv4CIip8GQ</recordid><startdate>20230905</startdate><enddate>20230905</enddate><creator>Gan, Yi-Ming</creator><creator>Perez Perez, Ruben</creator><creator>Provoost, Pieter</creator><creator>Benson, Abigail</creator><creator>Peralta Brichtova, Ana Carolina</creator><creator>Lawrence, Elizabeth</creator><creator>Nicholls, John</creator><creator>Konjarla, Johnny</creator><creator>Sarafidou, Georgia</creator><creator>Saeedi, Hanieh</creator><creator>Lear, Dan</creator><creator>Penzlin, Anke</creator><creator>Wambiji, Nina</creator><creator>Appeltans, Ward</creator><general>Pensoft Publishers</general><scope>AAYXX</scope><scope>CITATION</scope><scope>IAO</scope><scope>8FE</scope><scope>8FH</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M7P</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><orcidid>https://orcid.org/0000-0002-5304-941X</orcidid><orcidid>https://orcid.org/0000-0003-0830-9814</orcidid><orcidid>https://orcid.org/0000-0002-4845-0241</orcidid><orcidid>https://orcid.org/0000-0003-3181-0498</orcidid><orcidid>https://orcid.org/0000-0001-7087-2646</orcidid><orcidid>https://orcid.org/0000-0002-4391-107X</orcidid><orcidid>https://orcid.org/0000-0003-0974-3401</orcidid><orcidid>https://orcid.org/0000-0002-5806-0837</orcidid><orcidid>https://orcid.org/0000-0002-6677-2316</orcidid><orcidid>https://orcid.org/0000-0003-2183-893X</orcidid><orcidid>https://orcid.org/0000-0002-3237-4547</orcidid></search><sort><creationdate>20230905</creationdate><title>Promoting High-Quality Data in OBIS: Insights from the OBIS Data Quality Assessment and Enhancement Project Team</title><author>Gan, Yi-Ming ; Perez Perez, Ruben ; Provoost, Pieter ; Benson, Abigail ; Peralta Brichtova, Ana Carolina ; Lawrence, Elizabeth ; Nicholls, John ; Konjarla, Johnny ; Sarafidou, Georgia ; Saeedi, Hanieh ; Lear, Dan ; Penzlin, Anke ; Wambiji, Nina ; Appeltans, Ward</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c1448-6f836c5a3ceeaa60bce6885c09908aca512c453b55e663976d92a3cf3a3676ca3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Biodiversity</topic><topic>Capacity development</topic><topic>Collaboration</topic><topic>Community involvement</topic><topic>Data processing</topic><topic>Feedback</topic><topic>Information management</topic><topic>Knowledge sharing</topic><topic>Laundry</topic><topic>Problem solving</topic><topic>Quality control</topic><topic>Standardization</topic><topic>Surveys</topic><topic>Training</topic><toplevel>online_resources</toplevel><creatorcontrib>Gan, Yi-Ming</creatorcontrib><creatorcontrib>Perez Perez, Ruben</creatorcontrib><creatorcontrib>Provoost, Pieter</creatorcontrib><creatorcontrib>Benson, Abigail</creatorcontrib><creatorcontrib>Peralta Brichtova, Ana Carolina</creatorcontrib><creatorcontrib>Lawrence, Elizabeth</creatorcontrib><creatorcontrib>Nicholls, John</creatorcontrib><creatorcontrib>Konjarla, Johnny</creatorcontrib><creatorcontrib>Sarafidou, Georgia</creatorcontrib><creatorcontrib>Saeedi, Hanieh</creatorcontrib><creatorcontrib>Lear, Dan</creatorcontrib><creatorcontrib>Penzlin, Anke</creatorcontrib><creatorcontrib>Wambiji, Nina</creatorcontrib><creatorcontrib>Appeltans, Ward</creatorcontrib><collection>CrossRef</collection><collection>Gale Academic OneFile</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Biological Science Database</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><jtitle>Biodiversity Information Science and Standards</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Gan, Yi-Ming</au><au>Perez Perez, Ruben</au><au>Provoost, Pieter</au><au>Benson, Abigail</au><au>Peralta Brichtova, Ana Carolina</au><au>Lawrence, Elizabeth</au><au>Nicholls, John</au><au>Konjarla, Johnny</au><au>Sarafidou, Georgia</au><au>Saeedi, Hanieh</au><au>Lear, Dan</au><au>Penzlin, Anke</au><au>Wambiji, Nina</au><au>Appeltans, Ward</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Promoting High-Quality Data in OBIS: Insights from the OBIS Data Quality Assessment and Enhancement Project Team</atitle><jtitle>Biodiversity Information Science and Standards</jtitle><date>2023-09-05</date><risdate>2023</risdate><volume>7</volume><issue>1</issue><issn>2535-0897</issn><eissn>2535-0897</eissn><abstract>The Ocean Biodiversity Information System (OBIS) (Klein et al. 2019) is a global database of marine biodiversity and associated environmental data, which provides critical information to researchers and policymakers worldwide. Ensuring the accuracy and consistency of the data in OBIS is essential for its usefulness and value, not only to the scientific community but also to the science-policy interface. The OBIS Data Quality Assessment and Enhancement Project Team (QCPT), formed in 2019 by the OBIS steering group, aims to assess and enhance data quality. It has been working on three categories of activities for this purpose:
Data quality enhancement and management
The OBIS QCPT organized data laundry events to identify and address data quality issues of published OBIS datasets. Furthermore, individual OBIS nodes were invited to give their data-processing presentations in the monthly meetings to foster knowledge sharing and collaborative problem-solving focused on data quality. Data quality issues and solutions highlighted in the presentations and data laundry events were documented in a dedicated GitHub repository as GitHub issues. The solutions for data quality issues and marine-specific pre-publication quality control tools, designed to identify the data quality issues, were provided as feedback to the OBIS Capacity Development Task Team. These inputs were used to create training resources (see OBIS manual, upcoming OBIS training course hosted on OceanTeacher Global Academy) aimed at preventing these issues.
Standardization of OBIS data processing pipeline
As OBIS uses the Darwin Core standard (Wieczorek et al. 2012), the use of standardized tests and assertions in the data processing pipeline is encouraged. To achieve this, the OBIS QCPT aligned OBIS quality checks with a subset of core tests and assertions (Chapman et al. 2020) developed by the Biodiversity Information Standards (TDWG) Biodiversity Data Quality (BDQ) Task Group 2 (TG2) (Chapman et al. 2020) as tracked in this GitHub issue. Not all default parameters of the core tests and assertions are optimal for marine biodiversity data. The OBIS QCPT met monthly to determine suitable parameters for customizing the tests. The pipeline produces a data quality report for each dataset with quality flags that indicate potential data quality issues, enabling node managers and data providers to review the flagged records.
Community engagement
The OBIS QCPT led a survey among data users to gather insights into OBIS data quality issues and bridge the gap between the current implementation and user expectations. The survey findings enabled OBIS to prioritize issues to be addressed, as summarized in Section 2.2.2 of the 11th OBIS Steering Group meeting report. In addition to engaging with data users, the OBIS QCPT also served as a platform to discuss questions related to the use of Darwin Core from the nodes and provided feedback for the term discussions.
In summary, the OBIS QCPT improves marine species data reliability and usability through transparent and participatory approaches, fostering continuous improvement. Collaborative efforts, standardized procedures, and knowledge sharing advance OBIS' mission of providing high quality biodiversity data for research, conservation, and ocean management.</abstract><cop>Sofia</cop><pub>Pensoft Publishers</pub><doi>10.3897/biss.7.112018</doi><orcidid>https://orcid.org/0000-0002-5304-941X</orcidid><orcidid>https://orcid.org/0000-0003-0830-9814</orcidid><orcidid>https://orcid.org/0000-0002-4845-0241</orcidid><orcidid>https://orcid.org/0000-0003-3181-0498</orcidid><orcidid>https://orcid.org/0000-0001-7087-2646</orcidid><orcidid>https://orcid.org/0000-0002-4391-107X</orcidid><orcidid>https://orcid.org/0000-0003-0974-3401</orcidid><orcidid>https://orcid.org/0000-0002-5806-0837</orcidid><orcidid>https://orcid.org/0000-0002-6677-2316</orcidid><orcidid>https://orcid.org/0000-0003-2183-893X</orcidid><orcidid>https://orcid.org/0000-0002-3237-4547</orcidid><oa>free_for_read</oa></addata></record> |
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subjects | Biodiversity Capacity development Collaboration Community involvement Data processing Feedback Information management Knowledge sharing Laundry Problem solving Quality control Standardization Surveys Training |
title | Promoting High-Quality Data in OBIS: Insights from the OBIS Data Quality Assessment and Enhancement Project Team |
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