SIA: Scalable Interoperable Annotation Server

Johannes Kirschnick, Philippe Thomas

In: Proceedings of the BioCreative V.5 Challenge Evaluation Workshop. BioCreative Workshop Barcelona Spain Pages 138-145 ISBN 978-84-933255-9-6 4/2017.


Recent years showed a strong increase in biomedical sciences and an inherent increase in publication volume. Extraction of specific information from these sources requires highly sophisticated text mining- and information extraction-tools. However, the integration of freely available tools into customized workflows is often cumbersome and difficult. We describe SIA our contribution to the BeCalm-TIPS task, a scalable, extensible, and robust annotation service. The system currently covers three named entity types (i.e., Mutations, Diseases, and miRNA) and is freely available under Apache 2.0 license at


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scalable-interchangeable-annotation.pdf (pdf, 292 KB)

German Research Center for Artificial Intelligence
Deutsches Forschungszentrum für Künstliche Intelligenz