7,365 research outputs found

    Classification of protein interaction sentences via gaussian processes

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    The increase in the availability of protein interaction studies in textual format coupled with the demand for easier access to the key results has lead to a need for text mining solutions. In the text processing pipeline, classification is a key step for extraction of small sections of relevant text. Consequently, for the task of locating protein-protein interaction sentences, we examine the use of a classifier which has rarely been applied to text, the Gaussian processes (GPs). GPs are a non-parametric probabilistic analogue to the more popular support vector machines (SVMs). We find that GPs outperform the SVM and na\"ive Bayes classifiers on binary sentence data, whilst showing equivalent performance on abstract and multiclass sentence corpora. In addition, the lack of the margin parameter, which requires costly tuning, along with the principled multiclass extensions enabled by the probabilistic framework make GPs an appealing alternative worth of further adoption

    Classification of Radiology Reports Using Neural Attention Models

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    The electronic health record (EHR) contains a large amount of multi-dimensional and unstructured clinical data of significant operational and research value. Distinguished from previous studies, our approach embraces a double-annotated dataset and strays away from obscure "black-box" models to comprehensive deep learning models. In this paper, we present a novel neural attention mechanism that not only classifies clinically important findings. Specifically, convolutional neural networks (CNN) with attention analysis are used to classify radiology head computed tomography reports based on five categories that radiologists would account for in assessing acute and communicable findings in daily practice. The experiments show that our CNN attention models outperform non-neural models, especially when trained on a larger dataset. Our attention analysis demonstrates the intuition behind the classifier's decision by generating a heatmap that highlights attended terms used by the CNN model; this is valuable when potential downstream medical decisions are to be performed by human experts or the classifier information is to be used in cohort construction such as for epidemiological studies

    Learning Dynamic Feature Selection for Fast Sequential Prediction

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    We present paired learning and inference algorithms for significantly reducing computation and increasing speed of the vector dot products in the classifiers that are at the heart of many NLP components. This is accomplished by partitioning the features into a sequence of templates which are ordered such that high confidence can often be reached using only a small fraction of all features. Parameter estimation is arranged to maximize accuracy and early confidence in this sequence. Our approach is simpler and better suited to NLP than other related cascade methods. We present experiments in left-to-right part-of-speech tagging, named entity recognition, and transition-based dependency parsing. On the typical benchmarking datasets we can preserve POS tagging accuracy above 97% and parsing LAS above 88.5% both with over a five-fold reduction in run-time, and NER F1 above 88 with more than 2x increase in speed.Comment: Appears in The 53rd Annual Meeting of the Association for Computational Linguistics, Beijing, China, July 201
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