In this paper, we describe our participation in phase B of task 5b of the fifth edition of the annual BioASQ challenge, which includes answering factoid, list, yes-no and summary questions from biomedical data. We describe our techniques with an emphasis on ideal answer generation, where the goal is to produce a relevant, precise , non-redundant, query-oriented summary from multiple relevant documents. We make use of extractive summariza-tion techniques to address this task and experiment with different biomedical on-tologies and various algorithms including agglomerative clustering, Maximum Marginal Relevance (MMR) and sentence compression. We propose a novel word embedding based tf-idf similarity metric and a soft positional constraint which improve our system performance. We evaluate our techniques on test batch 4 from the fourth edition of the challenge. Our best system achieves a ROUGE-2 score of 0.6534 and ROUGE-SU4 score of 0.6536.

In this paper, we describe our participation in phase B of task 5b of the fifth edition of the annual BioASQ challenge, which includes answering factoid, list, yes-no and summary questions from biomedical data. We describe our techniques with an emphasis on ideal answer generation, where the goal is to produce a relevant, precise, non-redundant, query-oriented summary from multiple relevant documents. We make use of extractive summarization techniques to address this task and experiment with different biomedical ontologies and various algorithms including agglomerative clustering, Maximum Marginal Relevance (MMR) and sentence compression. We propose a novel word embedding based tf-idf similarity metric and a soft positional constraint which improve our system performance. We evaluate our techniques on test batch 4 from the fourth edition of the challenge. Our best system achieves a ROUGE-2 score of 0.6534 and ROUGE-SU4 score of 0.6536.

Deep neural networks for machine comprehension typically utilizes only word or character embeddings without explicitly taking advantage of structured linguistic information such as constituency trees and dependency trees. In this paper, we propose structural embedding of syntactic trees (SEST), an algorithm framework to utilize structured information and encode them into vector representations that can boost the performance of algorithms for the machine comprehension. We evaluate our approach using a state-of-the-art neural attention model on the SQuAD dataset. Experimental results demonstrate that our model can accurately identify the syntactic boundaries of the sentences and extract answers that are syntactically coherent over the baseline methods.

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