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Patient data, more exactly, electronic medical records (EMR), usually contain a lot of free texts. Those unstructured medical data cannot be easily understood by computers. In addition, EMR data have a strong privacy, which hinders the sharing and use of medical data and makes it impossible to conduct more in-depth medical research. This paper presents a method of the realization of semantic EMR by making semantic annotations on free texts in medical records. We will show how to use Natural Language Processing (NLP) tools to create semantic annotation with wellknown biomedical terminologies/ontologies such as the Unified Medical Language System (UMLS). Moreover, we will describe how to make the semantic annotations on a set of virtual patient data for depression, which are generated by using the Advanced Patient Data Generator (APDG), a knowledge-based patient data generator. In short, our goal is to use semantic technology to improve the sharing and utilization of medical data and the interoperability among systems. © 2018 Association for Computing Machinery.
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