MUST-CNN: A Multilayer Shift-and-Stitch Deep Convolutional Architecture for Sequence-based Protein Structure Prediction

Predicting protein properties such as solvent accessibility and secondary structure from its primary amino acid sequence is an important task in bioinformatics. Recently, a few deep learning models have surpassed the traditional window based multilayer perceptron. Taking inspiration from the image classification domain we propose a deep convolutional neural network architecture, MUST-CNN, to predict protein properties. This architecture uses a novel multilayer shift-and-stitch (MUST) technique to generate fully dense per-position predictions on protein sequences. Our model is significantly simpler than the state-of-the-art, yet achieves better results. By combining MUST and the efficient convolution operation, we can consider far more parameters while retaining very fast prediction speeds. We beat the state-of-the-art performance on two large protein property prediction datasets.Comment: 8 pages ; 3 figures ; deep learning based sequence-sequence prediction. in AAAI 201

Are Word Embedding-based Features Useful for Sarcasm Detection?

This paper makes a simple increment to state-of-the-art in sarcasm detection research. Existing approaches are unable to capture subtle forms of context incongruity which lies at the heart of sarcasm. We explore if prior work can be enhanced using semantic similarity/discordance between word embeddings. We augment word embedding-based features to four feature sets reported in the past. We also experiment with four types of word embeddings. We observe an improvement in sarcasm detection, irrespective of the word embedding used or the original feature set to which our features are augmented. For example, this augmentation results in an improvement in F-score of around 4\% for three out of these four feature sets, and a minor degradation in case of the fourth, when Word2Vec embeddings are used. Finally, a comparison of the four embeddings shows that Word2Vec and dependency weight-based features outperform LSA and GloVe, in terms of their benefit to sarcasm detection.Comment: The paper will be presented at Conference on Empirical Methods in Natural Language Processing (EMNLP) 2016 in November 2016. http://www.emnlp2016.net