OpenBiodiv: A Knowledge Graph for Literature-Extracted Linked Open Data in Biodiversity Science

Lyubomir Penev, Mariya Dimitrova, Viktor Senderov, Georgi Zhelezov, Teodor Georgiev, Pavel Stoev and Kiril Simov
Additional contact information
Lyubomir Penev: Pensoft Publishers, Prof. Georgi Zlatarski Street 12, 1700 Sofia, Bulgaria
Mariya Dimitrova: Pensoft Publishers, Prof. Georgi Zlatarski Street 12, 1700 Sofia, Bulgaria
Viktor Senderov: Swedish Museum of Natural History, Frescativägen 40, 114 18 Stockholm, Sweden
Georgi Zhelezov: Pensoft Publishers, Prof. Georgi Zlatarski Street 12, 1700 Sofia, Bulgaria
Teodor Georgiev: Pensoft Publishers, Prof. Georgi Zlatarski Street 12, 1700 Sofia, Bulgaria
Pavel Stoev: Pensoft Publishers, Prof. Georgi Zlatarski Street 12, 1700 Sofia, Bulgaria
Kiril Simov: Institute of Information and Communication Technologies, Bulgarian Academy of Sciences, Acad. G. Bonchev St., Block 25A, 1113 Sofia, Bulgaria

Publications, 2019, vol. 7, issue 2, 1-16

Abstract: Hundreds of years of biodiversity research have resulted in the accumulation of a substantial pool of communal knowledge; however, most of it is stored in silos isolated from each other, such as published articles or monographs. The need for a system to store and manage collective biodiversity knowledge in a community-agreed and interoperable open format has evolved into the concept of the Open Biodiversity Knowledge Management System (OBKMS). This paper presents OpenBiodiv: An OBKMS that utilizes semantic publishing workflows, text and data mining, common standards, ontology modelling and graph database technologies to establish a robust infrastructure for managing biodiversity knowledge. It is presented as a Linked Open Dataset generated from scientific literature. OpenBiodiv encompasses data extracted from more than 5000 scholarly articles published by Pensoft and many more taxonomic treatments extracted by Plazi from journals of other publishers. The data from both sources are converted to Resource Description Framework (RDF) and integrated in a graph database using the OpenBiodiv-O ontology and an RDF version of the Global Biodiversity Information Facility (GBIF) taxonomic backbone. Through the application of semantic technologies, the project showcases the value of open publishing of Findable, Accessible, Interoperable, Reusable (FAIR) data towards the establishment of open science practices in the biodiversity domain.

Keywords: open science; biodiversity; biodiversity informatics; knowledge management system; semantic publishing; Linked Open Data; Semantic Web; ontology (search for similar items in EconPapers)
JEL-codes: A2 D83 L82 (search for similar items in EconPapers)
Date: 2019
References: View complete reference list from CitEc
Citations: View citations in EconPapers (1)

Downloads: (external link)
https://www.mdpi.com/2304-6775/7/2/38/pdf (application/pdf)
https://www.mdpi.com/2304-6775/7/2/38/ (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:gam:jpubli:v:7:y:2019:i:2:p:38-:d:235319

Access Statistics for this article

Publications is currently edited by Ms. Jennifer Zhang

More articles in Publications from MDPI
Bibliographic data for series maintained by MDPI Indexing Manager ().