CBLNER: A Multi-models Biomedical Named Entity Recognition System Based on Machine Learning

摘要

Biomedical named entities is fundamental recognition task in biomedical text mining. This paper developed a system for identifying biomedical entities with four models including CRF, LSTM, Bi-LSTM and BiLSTM-CRF. The system achieved the following performance in test data Genia V3.02: CRF with an F score of 75.91%, LSTM with an F score of 71.69%, BiLSTM with a F score of 74.37%, BiLSTM-CRF with a F score of 76.81%. Experimental results show the performance of BiLSTM-CRF model is better than other three models. Compared with CRF model, Bi-LSTM-CRF model has better recognition effect for biological entities in long text and entities that modified by modifiers. Therefore, CBLNER system lays a foundation for further relationship and event extraction, and could also provide reference for entity recognition research in other fields.