Mining Biodiversity: Enriching Biodiversity Heritage with Text Mining and Social Media
Mining Biodiversity is one of the projects that won in the third round of the transatlantic Digging Into Data Challenge, a competition aiming to promote the development of innovative computational techniques that can be applied to big data in the humanities and social sciences. Overall, 14 teams representing collaborations from Canada, US, UK and the Netherlands have been selected. Four of the selected projects come from the UK.
The project is an international collaboration between the National Centre for Text Mining (UK), Missouri Botanical Garden (US), Dalhousie University's Big Data Analytics Institute (Canada) and Ryerson University's Social Media Lab (Canada). NaCTeM was also a recipient of the 2011 Digging into Data call with the Integrated Social History Environment for Research (ISHER) project.
The Mining Biodiversity project aims to transform the Biodiversity Heritage Library (BHL) into a next-generation social digital library resource to facilitate the study and discussion (via social media integration) of legacy science documents on biodiversity by a worldwide community and to raise awareness of the changes in biodiversity over time in the general public. The project integrates novel text mining (TM) methods, visualisation, crowdsourcing and social media into the BHL. The resulting digital resource will provide fully interlinked and indexed access to the full content of BHL library documents, via semantically enhanced and interactive browsing and searching capabilities, allowing users to locate precisely the information of interest to them in an easy and efficient manner.
By promoting the development of capabilities that will foster collaboration amongst researchers from the fields of History of Science, Environmental History, Environmental Studies, Library and Information Science and Social Media, the proposed project will make a significant impact on the above disciplines by:
- enriching a large-scale library, i.e., the BHL, via innovative application of text mining techniques to produce semantic metadata and a term inventory,
- providing improved access to biodiversity-related digital artifacts via an enhanced search engine and visualisation of results, and
- stimulating increased collaboration, interaction and sharing of information amongst BHL users via the social media environment.
The project has five major components:
- Automatic correction of errors in text extracted automatically from legacy biodiversity literature via optical character recognition (OCR).
- Development of a crowdsourcing facility that will encourage users to annotate legacy texts with semantic metadata.
- Adaptation of text mining technologies to extract metadata (i.e., terminology, entities and significant events) automatically and to track terminology evolution over time. This will facilitate semantic search, allowing users to explore search results according to multiple information dimensions or facets.
- Interactive visualisation techniques will be used to help users to make sense of search results through the integration of next generation browsing capabilities, assisted by a semantic similarity network of important terms and entities.
- Design of a social media layer, serving as an environment for diverse users to interact and collaborate on science, public education, awareness and outreach.
William Ulate, Missouri Botanical Garden
Missouri Botanical Garden: William Ulate, Trish Rose-Sandler
Ryerson University: Dr. Anatoliy Gruzd
- New article on improving drug named entity recognition by aggregating heterogeneous methods
- NaCTeM mentioned in The Lancet
- New article on extracting phenotypic information from text
- New article on detecting biomedical term translations
- NaCTeM mentioned in The Guardian
- Text Mining the History of Medicine Workshop at Wellcome Trust, London
- Keynote talk at SIMBig 2015
- Prof. Tsujii appointed director of new Artificial Intelligence Research Center at AIST, Japan
Other News & Events
- Invited Talk at Imperial College, London
- Invited Talk at Lancaster University
- Invited Seminar at Institute of Historical Research
- Invited Talk at BMJ Editors' seminar
- BioNLP 2015 - call for papers