FAIRClinical D5.1: UML specification describing the development of the new index and its integration within SIBiLS

The SIB Literature Services (SIBiLS) is a custom search engine API [1] that provides search services for exploring biomedical literature. In addition to mirroring MEDLINE and PMC contents with daily updates from the National Library of Medicine, SIBiLS annotates these contents with a wide range of terminological resources. The resulting collection contains more than 2 billion RDF annotations, making SIBiLS the world's largest semantically enriched library for life sciences. The goal of WP5 is to implement the onboarding of external annotations to improve the searchability and semantic interoperability of SIBiLS and in particular the case reports and case report forms documents. The information extraction components developed in WP3 and 4 will be applied to the existing content of SIBiLS as well as to newly acquired supplementary data files from WP2. SIBiLS will be updated to incorporate the new annotations from WP3 and 4, and specific indexes will be created in the MongoDB and Elasticsearch/Lucene backend systems that serve SIBiLS. This document contains a general schema and more detailed UML specifications describing the workflow and interactions for integrating and updating external annotations into the SIBiLS system.