Timely and accurate extraction of Adverse Drug Events (ADE) from biomedical literature is paramount for public safety, but involves slow and costly manual labor. We set out to improve drug safety monitoring (pharmacovigilance, PV) through the use of Natural Language Processing (NLP). We introduce BioDEX, a large-scale resource for Biomedical adverse Drug Event eXtraction, rooted in the historical output of drug safety reporting in the U.S. BioDEX consists of 65k abstracts and 19k full-text biomedical papers with 256k associated document-level safety reports created by medical experts. The core features of these reports include the reported weight, age, and biological sex of a patient, a set of drugs taken by the patient, the drug dosages, the reactions experienced, and whether the reaction was life threatening. In this work, we consider the task of predicting the core information of the report given its originating paper. We estimate human performance to be 72.0% F1, whereas our best model achieves 59.1% F1 (62.3 validation), indicating significant headroom. We also begin to explore ways in which these models could help professional PV reviewers. Our code and data are available at https://github.com/KarelDO/BioDEX.

Question Generation (QG) systems have shown promising results in reducing the time and effort required to create questions for students. Typically, a first step in QG is to select the content to design a question for. In an educational setting, it is crucial that the resulting questions cover the most relevant/important pieces of knowledge the student should have acquired. Yet, current QG systems either consider just a single sentence or paragraph (thus do not include a selection step), or do not consider this educational viewpoint of content selection. Aiming to fill this research gap with a solution for educational document level QG, we thus propose to select contents for QG based on relevance and topic diversity. We demonstrate the effectiveness of our proposed content selection strategy for QG on 2 educational datasets. In our performance assessment, we also highlight limitations of existing QG evaluation metrics in light of the content selection problem.

Since performing exercises (including, e.g.,practice tests) forms a crucial component oflearning, and creating such exercises requiresnon-trivial effort from the teacher. There is agreat value in automatic exercise generationin digital tools in education. In this paper, weparticularly focus on automatic creation of gap-filling exercises for language learning, specifi-cally grammar exercises. Since providing anyannotation in this domain requires human ex-pert effort, we aim to avoid it entirely and ex-plore the task of converting existing texts intonew gap-filling exercises, purely based on anexample exercise, without explicit instructionor detailed annotation of the intended gram-mar topics. We contribute (i) a novel neuralnetwork architecture specifically designed foraforementioned gap-filling exercise generationtask, and (ii) a real-world benchmark datasetfor French grammar. We show that our modelfor this French grammar gap-filling exercisegeneration outperforms a competitive baselineclassifier by 8% in F1 percentage points, achiev-ing an average F1 score of 82%. Our model im-plementation and the dataset are made publiclyavailable to foster future research, thus offeringa standardized evaluation and baseline solutionof the proposed partially annotated data predic-tion task in grammar exercise creation.

We consider the task of document-level entity linking (EL), where it is important to make consistent decisions for entity mentions over the full document jointly. We aim to leverage explicit “connections” among mentions within the document itself: we propose to join EL and coreference resolution (coref) in a single structured prediction task over directed trees and use a globally normalized model to solve it. This contrasts with related works where two separate models are trained for each of the tasks and additional logic is required to merge the outputs. Experimental results on two datasets show a boost of up to +5% F1-score on both coref and EL tasks, compared to their standalone counterparts. For a subset of hard cases, with individual mentions lacking the correct EL in their candidate entity list, we obtain a +50% increase in accuracy.

This work presents the contribution from the Text-to-Knowledge team of Ghent University (UGent-T2K) to the MultiDoc2Dial shared task on modeling dialogs grounded in multiple documents. We propose a pipeline system, comprising (1) document retrieval, (2) passage retrieval, and (3) response generation. We engineered these individual components mainly by, for (1)-(2), combining multiple ranking models and adding a final LambdaMART reranker, and, for (3), by adopting a Fusion-in-Decoder (FiD) model. We thus significantly boost the baseline system’s performance (over +10 points for both F1 and SacreBLEU). Further, error analysis reveals two major failure cases, to be addressed in future work: (i) in case of topic shift within the dialog, retrieval often fails to select the correct grounding document(s), and (ii) generation sometimes fails to use the correctly retrieved grounding passage. Our code is released at this link.

Large annotated corpora for coreference resolution are available for few languages. For machine translation, however, strong black-box systems exist for many languages. We empirically explore the appealing idea of leveraging such translation tools for bootstrapping coreference resolution in languages with limited resources. Two scenarios are analyzed, in which a large coreference corpus in a high-resource language is used for coreference predictions in a smaller language, i.e., by machine translating either the training corpus or the test data. In our empirical evaluation of coreference resolution using the two scenarios on several medium-resource languages, we find no improvement over monolingual baseline models. Our analysis of the various sources of error inherent to the studied scenarios, reveals that in fact the quality of contemporary machine translation tools is the main limiting factor.

We propose a newly annotated dataset for information extraction on recipes. Unlike previous approaches to machine comprehension of procedural texts, we avoid a priori pre-defining domain-specific predicates to recognize (e.g., the primitive instructionsin MILK) and focus on basic understanding of the expressed semantics rather than directly reduce them to a simplified state representation (e.g., ProPara). We thus frame the semantic comprehension of procedural text such as recipes, as fairly generic NLP subtasks, covering (i) entity recognition (ingredients, tools and actions), (ii) relation extraction (what ingredients and tools are involved in the actions), and (iii) zero anaphora resolution (link actions to implicit arguments, e.g., results from previous recipe steps). Further, our Recipe Instruction Semantic Corpus (RISeC) dataset includes textual descriptions for the zero anaphora, to facilitate language generation thereof. Besides the dataset itself, we contribute a pipeline neural architecture that addresses entity and relation extractionas well an identification of zero anaphora. These basic building blocks can facilitate more advanced downstream applications (e.g., question answering, conversational agents).

This paper introduces improved methods for sub-event detection in social media streams, by applying neural sequence models not only on the level of individual posts, but also directly on the stream level. Current approaches to identify sub-events within a given event, such as a goal during a soccer match, essentially do not exploit the sequential nature of social media streams. We address this shortcoming by framing the sub-event detection problem in social media streams as a sequence labeling task and adopt a neural sequence architecture that explicitly accounts for the chronological order of posts. Specifically, we (i) establish a neural baseline that outperforms a graph-based state-of-the-art method for binary sub-event detection (2.7% micro-F1 improvement), as well as (ii) demonstrate superiority of a recurrent neural network model on the posts sequence level for labeled sub-events (2.4% bin-level F1 improvement over non-sequential models).

This paper describes IDLab’s text classification systems submitted to Task A as part of the CLPsych 2019 shared task. The aim of this shared task was to develop automated systems that predict the degree of suicide risk of people based on their posts on Reddit. Bag-of-words features, emotion features and post level predictions are used to derive user-level predictions. Linear models and ensembles of these models are used to predict final scores. We find that predicting fine-grained risk levels is much more difficult than flagging potentially at-risk users. Furthermore, we do not find clear added value from building richer ensembles compared to simple baselines, given the available training data and the nature of the prediction task.

Inducing sparseness while training neural networks has been shown to yield models with a lower memory footprint but similar effectiveness to dense models. However, sparseness is typically induced starting from a dense model, and thus this advantage does not hold during training. We propose techniques to enforce sparseness upfront in recurrent sequence models for NLP applications, to also benefit training. First, in language modeling, we show how to increase hidden state sizes in recurrent layers without increasing the number of parameters, leading to more expressive models. Second, for sequence labeling, we show that word embeddings with predefined sparseness lead to similar performance as dense embeddings, at a fraction of the number of trainable parameters.

This paper describes the IDLab system submitted to Task A of the CLPsych 2018 shared task. The goal of this task is predicting psychological health of children based on language used in hand-written essays and socio-demographic control variables. Our entry uses word- and character-based features as well as lexicon-based features and features derived from the essays such as the quality of the language. We apply linear models, gradient boosting as well as neural-network based regressors (feed-forward, CNNs and RNNs) to predict scores. We then make ensembles of our best performing models using a weighted average.

Adversarial training (AT) is a regularization method that can be used to improve the robustness of neural network methods by adding small perturbations in the training data. We show how to use AT for the tasks of entity recognition and relation extraction. In particular, we demonstrate that applying AT to a general purpose baseline model for jointly extracting entities and relations, allows improving the state-of-the-art effectiveness on several datasets in different contexts (i.e., news, biomedical, and real estate data) and for different languages (English and Dutch).

In this paper, we address the (to the best of our knowledge) new problem of extracting a structured description of real estate properties from their natural language descriptions in classifieds. We survey and present several models to (a) identify important entities of a property (e.g.,rooms) from classifieds and (b) structure them into a tree format, with the entities as nodes and edges representing a part-of relation. Experiments show that a graph-based system deriving the tree from an initially fully connected entity graph, outperforms a transition-based system starting from only the entity nodes, since it better reconstructs the tree.