Joint RNN-Based Greedy Parsing and Word Composition

This paper introduces a greedy parser based on neural networks, which leverages a new compositional sub-tree representation. The greedy parser and the compositional procedure are jointly trained, and tightly depends on each-other. The composition procedure outputs a vector representation which summarizes syntactically (parsing tags) and semantically (words) sub-trees. Composition and tagging is achieved over continuous (word or tag) representations, and recurrent neural networks. We reach F1 performance on par with well-known existing parsers, while having the advantage of speed, thanks to the greedy nature of the parser. We provide a fully functional implementation of the method described in this paper.Comment: Published as a conference paper at ICLR 201

Word Sequence Modeling using Deep Learning:an End-to-end Approach and its Applications

For a long time, natural language processing (NLP) has relied on generative models with task specific and manually engineered features. Recently, there has been a resurgence of interest for neural networks in the machine learning community, obtaining state-of-the-art results in various fields such as computer vision, speech processing and natural language processing. The central idea behind these approaches is to learn features and models simultaneously, in an end-to-end manner, and making as few assumptions as possible. In NLP, word embeddings, mapping words in a dictionary on a continuous low-dimensional vector space, have proven to be very efficient for a large variety of tasks while requiring almost no a-priori linguistic assumptions. In this thesis, we investigate continuous representations of segments in a sentence for the purpose of solving NLP tasks that involve complex sentence-level relationships. Our sequence modelling approach is based on neural networks and takes advantage of word embeddings. A first approach models words in context in the form of continuous vector representations which are used to solve the task of interest. With the use of a compositional procedure, allowing arbitrarily-sized segments to be compressed onto continuous vectors, the model is able to consider long-range word dependencies as well. We first validate our approach on the task of bilingual word alignment, consisting in finding word correspondences between a sentence in two different languages. Source and target words in context are modeled using convolutional neural networks, obtaining representations that are later used to compute alignment scores. An aggregation operation enables unsupervised training for this task. We show that our model outperforms a standard generative model. The model above is extended to tackle phrase prediction tasks where phrases rather than single words are to be tagged. These tasks have been typically cast as classic word tagging problems using special tagging schemes to identify the segments boundaries. The proposed neural model focuses on learning fixed-size representations of arbitrarily-sized chunks of words that are used to solve the tagging task. A compositional operation is introduced in this work for the purpose of computing these representations. We demonstrate the viability of the proposed representations by evaluating the approach on the multiwork expression tagging task. The remainder of this thesis addresses the task of syntactic constituency parsing which, as opposed to the above tasks, aims at producing a structured output, in the form of a tree, of an input sentence. Syntactic parsing is cast as multiple phrase prediction problems that are solved recursively in a greedy manner. An extension using recursive compositional vector representations, allowing for lexical infor- mation to be propagated from early stages, is explored as well. This approach is evaluated on a standard corpus obtaining performance comparable to generative models with much shorter computation time. Finally, morphological tags are included as additional features, using a similar composition procedure, to improve the parsing performance for morphologically rich languages. State-of-the-art results were obtained for these task and languages

Neural Network-based Word Alignment through Score Aggregation

We present a simple neural network for word alignment that builds source and target word window representations to compute alignment scores for sentence pairs. To enable unsupervised training, we use an aggregation operation that summarizes the alignment scores for a given target word. A soft-margin objective increases scores for true target words while decreasing scores for target words that are not present. Compared to the popular Fast Align model, our approach improves alignment accuracy by 7 AER on English-Czech, by 6 AER on Romanian-English and by 1.7 AER on English-French alignment

Is Deep Learning Really Necessary for Word Embeddings?

Word embeddings resulting from neural language models have been shown to be successful for a large variety of NLP tasks. However, such architecture might be difficult to train and time-consuming. Instead, we propose to drastically sim- plify the word embeddings computation through a Hellinger PCA of the word co-occurence matrix. We compare those new word embeddings with some well- known embeddings on NER and movie review tasks and show that we can reach similar or even better performance. Although deep learning is not really necessary for generating good word embeddings, we show that it can provide an easy way to adapt embeddings to specific tasks

PGxCorpus and PGxLOD: two shared resources for knowledge management in pharmacogenomics

National audiencePharmacogenomics (PGx) studies the impact of genetic factors on drug response phenotypes. Atomic knowledge units in PGx have the form of ternary relationships linking one or more drugs, one or more genetic factors, and one or more phenotypes. Such relationships state that a patient having the specified genetic factors and being treated with the specified drugs is likely to experience the given phenotypes. PGx knowledge is of particular interest for the development of precision medicine which aims at tailoring drug treatments to each patient to reduce adverse effects and maximize drug efficacy. However, PGx knowledge is scattered across many sources (e.g., reference databases, the biomedical literature) and suffers from very heterogeneous levels of validation, i.e., some PGx relationships are extensively studied and have been translated into clinical practice, but most are only observed on small-size cohorts or not reproduced yet and necessitate further investigation. Consequently, there is a strong interest in extracting and integrating knowledge units from these different sources into a unique place to provide a consolidated view of the state-of-the-art knowledge of this domain and drive to the validation, or moderation, of insufficiently validated knowledge units. To this aim, we created and share with the community two resources: PGxCorpus and PGxLOD

Syntax-based Transfer Learning for the Task of Biomedical Relation Extraction

International audienceTransfer learning (TL) proposes to enhance machine learning performance on a problem, by reusing labeled data originally designed for a related problem. In particular, domain adaptation consists, for a specific task, in reusing training data developed for the same task but a distinct domain. This is particularly relevant to the applications of deep learning in Natural Language Processing, because those usually require large annotated corpora that may not exist for the targeted domain, but exist for side domains. In this paper, we experiment with TL for the task of Relation Extraction (RE) from biomedical texts, using the TreeLSTM model. We empirically show the impact of TreeLSTM alone and with domain adaptation by obtaining better performances than the state of the art on two biomedical RE tasks and equal performances for two others, for which few annotated data are available. Furthermore, we propose an analysis of the role that syntactic features may play in TL for RE