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BackgroundBiomedical named entity recognition(BNER) is a crucial initial step of information extraction in biomedical domain. The task is typically modeled as a sequence labeling problem. Various machine learning algorithms, such as Conditional Random Fields (CRFs), have been successfully used for this task. However, these state-of-the-art BNER systems largely depend on hand-crafted features.ResultsWe present a recurrent neural network (RNN) framework based on word embeddings and character representation. On top of the neural network architecture, we use a CRF layer to jointly decode labels for the whole sentence. In our approach, contextual information from both directions and long-range dependencies in the sequence, which is useful for this task, can be well modeled by bidirectional variation and long short-term memory (LSTM) unit, respectively. Although our models use word embeddings and character embeddings as the only features, the bidirectional LSTM-RNN (BLSTM-RNN) model achieves state-of-the-art performance — 86.55% F1 on BioCreative II gene mention (GM) corpus and 73.79% F1 on JNLPBA 2004 corpus.ConclusionsOur neural network architecture can be successfully used for BNER without any manual feature engineering. Experimental results show that domain-specific pre-trained word embeddings and character-level representation can improve the performance of the LSTM-RNN models. On the GM corpus, we achieve comparable performance compared with other systems using complex hand-crafted features. Considering the JNLPBA corpus, our model achieves the best results, outperforming the previously top performing systems. The source code of our method is freely available under GPL at https://github.com/lvchen1989/BNER.

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Deceptive reviews detection has attracted significant attention from both business and research communities. However, due to the difficulty of human labeling needed for supervised learning, the problem remains to be highly challenging. This paper proposed a novel angle to the problem by modeling PU (positive unlabeled) learning. A semi-supervised model, called mixing population and individual property PU learning (MPIPUL), is proposed. Firstly, some reliable negative examples are identified from the unlabeled dataset. Secondly, some representative positive examples and negative examples are generated based on LDA (Latent Dirichlet Allocation). Thirdly, for the remaining unlabeled examples (we call them spy examples), which can not be explicitly identified as positive and negative, two similarity weights are assigned, by which the probability of a spy example belonging to the positive class and the negative class are displayed. Finally, spy examples and their similarity weights are incorporated into SVM (Support Vector Machine) to build an accurate classifier. Experiments on gold-standard dataset demonstrate the effectiveness of MPIPUL which outperforms the state-of-the-art baselines.

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