Projects per year
Abstract
The assessment of genome function requires a mapping between genome-derived entities and biochemical reactions, and the biomedical literature represents a rich source of information about reactions between biological components. However, the increasingly rapid growth in the volume of literature provides both a challenge and an opportunity for researchers to isolate information about reactions of interest in a timely and efficient manner. In response, recent text mining research in the biology domain has been largely focused on the identification and extraction of ‘events’, i.e. categorised, structured representations of relationships between biochemical entities, from the literature. Functional genomics analyses necessarily encompass events as so defined. Automatic event extraction systems facilitate the development of sophisticated semantic search applications, allowing researchers to formulate structured queries over extracted events, so as to specify the exact types of reactions to be retrieved. This article provides an overview of recent research into event extraction. We cover annotated corpora on which systems are trained, systems that achieve state-of-the-art performance and details of the community shared tasks that have been instrumental in increasing the quality, coverage and scalability of recent systems. Finally, several concrete applications of event extraction are covered, together with emerging directions of research.
Original language | English |
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Pages (from-to) | 213-30 |
Number of pages | 17 |
Journal | Briefings in functional genomics |
Volume | 14 |
Issue number | 3 |
Early online date | 6 Jun 2014 |
DOIs | |
Publication status | Published - May 2015 |
Keywords
- text mining
- event extraction
- semantic annotation
- semantic search
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Dive into the research topics of 'Event-based text mining for biology and functional genomics'. Together they form a unique fingerprint.Projects
- 1 Finished
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Supporting Evidence Based Public Health Interventions using Text Mining
Ananiadou, S. (PI) & Mcnaught, J. (CoI)
31/03/14 → 31/03/17
Project: Research
Impacts
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Saving Time and Costs for Evidence-based Public Health Interventions: Text Mining Tool RobotAnalyst
Ananiadou, S. (Participant), Mcnaught, J. (Participant), Goulermas, J. (Participant), (Participant) & (Participant)
Impact: Health and wellbeing, Economic, Technological