BIOfid, a platform to enhance accessibility of biodiversity data

  • With the ongoing loss of global biodiversity, long-term recordings of species distribution patterns are increasingly becoming important to investigate the causes and consequences for their change. Therefore, the digitization of scientific literature, both modern and historical, has been attracting growing attention in recent years. To meet this growing demand the Specialised Information Service for Biodiversity Research (BIOfid) was launched in 2017 with the aim of increasing the availability and accessibility of biodiversity information. Closely tied to the research community the interdisciplinary BIOfid team is digitizing data sources of biodiversity related research and provides a modern and professional infrastructure for hosting and sharing them. As a pilot project, German publications on the distribution and ecology of vascular plants, birds, moths and butterflies covering the past 250 years are prioritized. Large parts of the text corpus defined in accordance with the needs of the relevant German research community have already been transferred to a machine-readable format and will be publicly accessible soon. Software tools for text mining, semantic annotation and analysis with respect to the current trends in machine learning are developed to maximize bioscientific data output through user-specific queries that can be created via the BIOfid web portal ( To boost knowledge discovery, specific ontologies focusing on morphological traits and taxonomy are being prepared and will continuously be extended to keep up with an ever-expanding volume of literature sources.

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Author:Claus WeilandORCiDGND, Christine DrillerORCiDGND, Markus KochORCiDGND, Marco SchmidtORCiDGND, Giuseppe AbramiORCiD, Sajawel Ahmed, Alexander MehlerORCiDGND, Adrian PachzeltORCiDGND, Gerwin KasperekORCiDGND, Angela HausingerGND, Thomas HörnschemeyerORCiD
Parent Title (English):Proceedings of the 10th International Conference on Ecological Informatics: translating ecological data into knowledge and decisions in a rapidly changing world : ICEI 2018. 24-28 September 2018, Jena, Germany / International Conference on Ecological Informatics ; Herausgeber: Jitendra Gaikwad, Birgitta König-Ries, Friedrich Recknagel
Publisher:Friedrich Schiller University Jena
Place of publication:Jena
Editor:Gaikad Jitendra, Birgitta König-Ries, Friedrich Recknagel
Document Type:Conference Proceeding
Year of Completion:2019
Date of first Publication:2018/09/23
Publishing Institution:Universitätsbibliothek Johann Christian Senckenberg
Release Date:2019/03/27
Tag:bio-ontologies; biodiversity knowledge base; machine learning; specialised information service; text mining
Page Number:16
First Page:251
Last Page:252
Dewey Decimal Classification:5 Naturwissenschaften und Mathematik / 57 Biowissenschaften; Biologie / 570 Biowissenschaften; Biologie
Sammlungen:Sammlung Biologie / Sondersammelgebiets-Volltexte
Licence (German):License LogoCreative Commons - Namensnennung 4.0