DWIE : an entity-centric dataset for multi-task document-level information extraction

This paper presents DWIE, the 'Deutsche Welle corpus for Information Extraction', a newly created multi-task dataset that combines four main Information Extraction (IE) annotation subtasks: (i) Named Entity Recognition (NER), (ii) Coreference Resolution, (iii) Relation Extraction (RE), and (iv) Entity Linking. DWIE is conceived as an entity-centric dataset that describes interactions and properties of conceptual entities on the level of the complete document. This contrasts with currently dominant mention-driven approaches that start from the detection and classification of named entity mentions in individual sentences. Further, DWIE presented two main challenges when building and evaluating IE models for it. First, the use of traditional mention-level evaluation metrics for NER and RE tasks on entity-centric DWIE dataset can result in measurements dominated by predictions on more frequently mentioned entities. We tackle this issue by proposing a new entity-driven metric that takes into account the number of mentions that compose each of the predicted and ground truth entities. Second, the document-level multi-task annotations require the models to transfer information between entity mentions located in different parts of the document, as well as between different tasks, in a joint learning setting. To realize this, we propose to use graph-based neural message passing techniques between document-level mention spans. Our experiments show an improvement of up to 5.5 F-1 percentage points when incorporating neural graph propagation into our joint model. This demonstrates DWIE's potential to stimulate further research in graph neural networks for representation learning in multi-task IE. We make DWIE publicly available at https://github.com/klimzaporojets/DWIE

DWIE: an entity-centric dataset for multi-task document-level information extraction

This paper presents DWIE, the 'Deutsche Welle corpus for Information Extraction', a newly created multi-task dataset that combines four main Information Extraction (IE) annotation subtasks: (i) Named Entity Recognition (NER), (ii) Coreference Resolution, (iii) Relation Extraction (RE), and (iv) Entity Linking. DWIE is conceived as an entity-centric dataset that describes interactions and properties of conceptual entities on the level of the complete document. This contrasts with currently dominant mention-driven approaches that start from the detection and classification of named entity mentions in individual sentences. Further, DWIE presented two main challenges when building and evaluating IE models for it. First, the use of traditional mention-level evaluation metrics for NER and RE tasks on entity-centric DWIE dataset can result in measurements dominated by predictions on more frequently mentioned entities. We tackle this issue by proposing a new entity-driven metric that takes into account the number of mentions that compose each of the predicted and ground truth entities. Second, the document-level multi-task annotations require the models to transfer information between entity mentions located in different parts of the document, as well as between different tasks, in a joint learning setting. To realize this, we propose to use graph-based neural message passing techniques between document-level mention spans. Our experiments show an improvement of up to 5.5 F1 percentage points when incorporating neural graph propagation into our joint model. This demonstrates DWIE's potential to stimulate further research in graph neural networks for representation learning in multi-task IE. We make DWIE publicly available at https://github.com/klimzaporojets/DWIE

Predicting suicide risk from online postings in Reddit : the UGent-IDLab submission to the CLPysch 2019 Shared Task A

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

Injecting Knowledge Base Information into End-to-End Joint Entity and Relation Extraction and Coreference Resolution

We consider a joint information extraction (IE) model, solving named entity recognition, coreference resolution and relation extraction jointly over the whole document. In particular, we study how to inject information from a knowledge base (KB) in such IE model, based on unsupervised entity linking. The used KB entity representations are learned from either (i) hyperlinked text documents (Wikipedia), or (ii) a knowledge graph (Wikidata), and appear complementary in raising IE performance. Representations of corresponding entity linking (EL) candidates are added to text span representations of the input document, and we experiment with (i) taking a weighted average of the EL candidate representations based on their prior (in Wikipedia), and (ii) using an attention scheme over the EL candidate list. Results demonstrate an increase of up to 5% F1-score for the evaluated IE tasks on two datasets. Despite a strong performance of the prior-based model, our quantitative and qualitative analysis reveals the advantage of using the attention-based approach

Solving Math Word Problems by Scoring Equations with Recursive Neural Networks

Solving math word problems is a cornerstone task in assessing language understanding and reasoning capabilities in NLP systems. Recent works use automatic extraction and ranking of candidate solution equations providing the answer to math word problems. In this work, we explore novel approaches to score such candidate solution equations using tree-structured recursive neural network (Tree-RNN) configurations. The advantage of this Tree-RNN approach over using more established sequential representations, is that it can naturally capture the structure of the equations. Our proposed method consists in transforming the mathematical expression of the equation into an expression tree. Further, we encode this tree into a Tree-RNN by using different Tree-LSTM architectures. Experimental results show that our proposed method (i) improves overall performance with more than 3% accuracy points compared to previous state-of-the-art, and with over 18% points on a subset of problems that require more complex reasoning, and (ii) outperforms sequential LSTMs by 4% accuracy points on such more complex problems

BioDEX: Large-Scale Biomedical Adverse Drug Event Extraction for Real-World Pharmacovigilance

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 62.3% F1, indicating significant headroom on this task. We also begin to explore ways in which these models could help professional PV reviewers. Our code and data are available: https://github.com/KarelDO/BioDEX.Comment: 28 page

Neural approaches to entity-centric information extraction

In dit proefschrift behandelen we een zeer specifiek gebied van NLP dat het begrip van entities in tekst aanpakt. We introduceren een radicaal andere, entity-centric kijk op de informatie in tekst. We stellen dat, in plaats van individuele vermeldingen in tekst te gebruiken om hun betekenis te begrijpen, we applicaties moeten bouwen die zouden werken in termen van entiteitsconcepten. Vervolgens, presenteren we een meer gedetailleerd model over hoe de entiteitsgerichte benadering kan worden gebruikt voor de taak entity linking. In ons werk laten we zien dat deze taak kan worden verbeterd door te overwegen entiteitskoppeling uit te voeren op het coreferentieclusterniveau in plaats van op elk van de vermeldingen afzonderlijk. In ons volgende werk, bestuderen we ook hoe de informatie van entiteiten uit Knowledge Base in tekst kan worden geïntegreerd. Ten slotte analyseren we de evolutie van de entiteiten vanuit een tijdsperspectief

Injecting knowledge base information into end-to-end joint entity and relation extraction and coreference resolution

We consider a joint information extraction(IE) model, solving named entity recognition, coreference resolution and relation extraction jointly over the whole document. In particular, we study how to inject information from a knowledge base (KB) in such IE model, based on unsupervised entity linking. The used KB entity representations are learned from either(i) hyperlinked text documents (Wikipedia), or(ii) a knowledge graph (Wikidata), and ap-pear complementary in raising IE performance. Representations of corresponding entity linking (EL) candidates are added to text span representations of the input document, and we experiment with (i) taking a weighted average of the EL candidate representations based on their prior (in Wikipedia), and (ii) using an attention scheme over the EL candidate list. Results demonstrate an increase of up to 5%F1-score for the evaluated IE tasks on two datasets. Despite a strong performance of the prior-based model, our quantitative and qualitative analysis reveals the advantage of using the attention-based approach

Towards Consistent Document-level Entity Linking: Joint Models for Entity Linking and Coreference Resolution

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 the EL task with that of coreference resolution (coref). This is complementary to related works that exploit either (i) implicit document information (e.g., latent relations among entity mentions, or general language models) or (ii) connections between the candidate links (e.g, as inferred from the external knowledge base). Specifically, we cluster mentions that are linked via coreference, and enforce a single EL for all of the clustered mentions together. The latter constraint has the added benefit of increased coverage by joining EL candidate lists for the thus clustered mentions. We formulate the coref+EL problem as a structured prediction task over directed trees and use a globally normalized model to solve it. 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