1. Configurable web-services for biomedical document annotation
- Author
-
Sérgio Matos
- Subjects
0301 basic medicine ,Computer science ,Interoperability ,Library and Information Sciences ,computer.software_genre ,World Wide Web ,lcsh:Chemistry ,03 medical and health sciences ,Annotation ,Text processing ,Named-entity recognition ,Server ,Physical and Theoretical Chemistry ,Adaptation (computer science) ,lcsh:T58.5-58.64 ,lcsh:Information technology ,Web-services ,Biomedical text mining ,Computer Graphics and Computer-Aided Design ,Computer Science Applications ,Named entity recognition ,030104 developmental biology ,lcsh:QD1-999 ,Web service ,computer ,Research Article - Abstract
The need to efficiently find and extract information from the continuously growing biomedical literature has led to the development of various annotation tools aimed at identifying mentions of entities and relations. Many of these tools have been integrated in user-friendly applications facilitating their use by non-expert text miners and database curators. In this paper we describe the latest version of Neji, a web-services ready text processing and annotation framework. The modular and flexible architecture facilitates adaptation to different annotation requirements, while the built-in web services allow its integration in external tools and text mining pipelines. The evaluation of the web annotation server on the technical interoperability and performance of annotation servers track of BioCreative V.5 further illustrates the flexibility and applicability of this framework.
- Published
- 2018