arXiv subjects

Emmanuele Chersoni

Publications and source records attributed to Emmanuele Chersoni.

36 records · Page 2Linked to original sources

arXiv2023

Extensive Evaluation of Transformer-based Architectures for Adverse Drug Events Extraction

Adverse Event (ADE) extraction is one of the core tasks in digital pharmacovigilance, especially when applied to informal texts. This task has been addressed by the Natural Language Processing community using large pre-trained language models, such as BERT. Despite the great number of Transformer-based architectures used in the literature, it is unclear which of them has better performances and why. Therefore, in this paper we perform an extensive evaluation and analysis of 19 Transformer-based models for ADE extraction on informal texts. We compare the performance of all the considered models on two datasets with increasing levels of informality (forums posts and tweets). We also combine the purely Transformer-based models with two commonly-used additional processing layers (CRF and LSTM), and analyze their effect on the models performance. Furthermore, we use a well-established feature importance technique (SHAP) to correlate the performance of the models with a set of features that describe them: model category (AutoEncoding, AutoRegressive, Text-to-Text), pretraining domain, training from scratch, and model size in number of parameters. At the end of our analyses, we identify a list of take-home messages that can be derived from the experimental data.

cs.CL↗

arXiv2023

Empirical Sufficiency Lower Bounds for Language Modeling with Locally-Bootstrapped Semantic Structures

In this work we build upon negative results from an attempt at language modeling with predicted semantic structure, in order to establish empirical lower bounds on what could have made the attempt successful. More specifically, we design a concise binary vector representation of semantic structure at the lexical level and evaluate in-depth how good an incremental tagger needs to be in order to achieve better-than-baseline performance with an end-to-end semantic-bootstrapping language model. We envision such a system as consisting of a (pretrained) sequential-neural component and a hierarchical-symbolic component working together to generate text with low surprisal and high linguistic interpretability. We find that (a) dimensionality of the semantic vector representation can be dramatically reduced without losing its main advantages and (b) lower bounds on prediction quality cannot be established via a single score alone, but need to take the distributions of signal and noise into account.

cs.CL↗

arXiv2022

Generalizing over Long Tail Concepts for Medical Term Normalization

Medical term normalization consists in mapping a piece of text to a large number of output classes. Given the small size of the annotated datasets and the extremely long tail distribution of the concepts, it is of utmost importance to develop models that are capable to generalize to scarce or unseen concepts. An important attribute of most target ontologies is their hierarchical structure. In this paper we introduce a simple and effective learning strategy that leverages such information to enhance the generalizability of both discriminative and generative models. The evaluation shows that the proposed strategy produces state-of-the-art performance on seen concepts and consistent improvements on unseen ones, allowing also for efficient zero-shot knowledge transfer across text typologies and datasets.

cs.CL↗

arXiv2022

AILAB-Udine@SMM4H 22: Limits of Transformers and BERT Ensembles

This paper describes the models developed by the AILAB-Udine team for the SMM4H 22 Shared Task. We explored the limits of Transformer based models on text classification, entity extraction and entity normalization, tackling Tasks 1, 2, 5, 6 and 10. The main take-aways we got from participating in different tasks are: the overwhelming positive effects of combining different architectures when using ensemble learning, and the great potential of generative models for term normalization.

cs.CL↗

arXiv2022

Increasing Adverse Drug Events extraction robustness on social media: case study on negation and speculation

In the last decade, an increasing number of users have started reporting Adverse Drug Events (ADE) on social media platforms, blogs, and health forums. Given the large volume of reports, pharmacovigilance has focused on ways to use Natural Language Processing (NLP) techniques to rapidly examine these large collections of text, detecting mentions of drug-related adverse reactions to trigger medical investigations. However, despite the growing interest in the task and the advances in NLP, the robustness of these models in face of linguistic phenomena such as negations and speculations is an open research question. Negations and speculations are pervasive phenomena in natural language, and can severely hamper the ability of an automated system to discriminate between factual and nonfactual statements in text. In this paper we take into consideration four state-of-the-art systems for ADE detection on social media texts. We introduce SNAX, a benchmark to test their performance against samples containing negated and speculated ADEs, showing their fragility against these phenomena. We then introduce two possible strategies to increase the robustness of these models, showing that both of them bring significant increases in performance, lowering the number of spurious entities predicted by the models by 60% for negation and 80% for speculations.

cs.CL↗

arXiv2022

Multi-label classification for biomedical literature: an overview of the BioCreative VII LitCovid Track for COVID-19 literature topic annotations

The COVID-19 pandemic has been severely impacting global society since December 2019. Massive research has been undertaken to understand the characteristics of the virus and design vaccines and drugs. The related findings have been reported in biomedical literature at a rate of about 10,000 articles on COVID-19 per month. Such rapid growth significantly challenges manual curation and interpretation. For instance, LitCovid is a literature database of COVID-19-related articles in PubMed, which has accumulated more than 200,000 articles with millions of accesses each month by users worldwide. One primary curation task is to assign up to eight topics (e.g., Diagnosis and Treatment) to the articles in LitCovid. Despite the continuing advances in biomedical text mining methods, few have been dedicated to topic annotations in COVID-19 literature. To close the gap, we organized the BioCreative LitCovid track to call for a community effort to tackle automated topic annotation for COVID-19 literature. The BioCreative LitCovid dataset, consisting of over 30,000 articles with manually reviewed topics, was created for training and testing. It is one of the largest multilabel classification datasets in biomedical scientific literature. 19 teams worldwide participated and made 80 submissions in total. Most teams used hybrid systems based on transformers. The highest performing submissions achieved 0.8875, 0.9181, and 0.9394 for macro F1-score, micro F1-score, and instance-based F1-score, respectively. The level of participation and results demonstrate a successful track and help close the gap between dataset curation and method development. The dataset is publicly available via https://ftp.ncbi.nlm.nih.gov/pub/lu/LitCovid/biocreative/ for benchmarking and further development.

cs.DL↗

arXiv2021

NADE: A Benchmark for Robust Adverse Drug Events Extraction in Face of Negations

Adverse Drug Event (ADE) extraction models can rapidly examine large collections of social media texts, detecting mentions of drug-related adverse reactions and trigger medical investigations. However, despite the recent advances in NLP, it is currently unknown if such models are robust in face of negation, which is pervasive across language varieties. In this paper we evaluate three state-of-the-art systems, showing their fragility against negation, and then we introduce two possible strategies to increase the robustness of these models: a pipeline approach, relying on a specific component for negation detection; an augmentation of an ADE extraction dataset to artificially create negated samples and further train the models. We show that both strategies bring significant increases in performance, lowering the number of spurious entities predicted by the models. Our dataset and code will be publicly released to encourage research on the topic.

cs.CL↗

arXiv2021

Exploring a Unified Sequence-To-Sequence Transformer for Medical Product Safety Monitoring in Social Media

Adverse Events (AE) are harmful events resulting from the use of medical products. Although social media may be crucial for early AE detection, the sheer scale of this data makes it logistically intractable to analyze using human agents, with NLP representing the only low-cost and scalable alternative. In this paper, we frame AE Detection and Extraction as a sequence-to-sequence problem using the T5 model architecture and achieve strong performance improvements over competitive baselines on several English benchmarks (F1 = 0.71, 12.7% relative improvement for AE Detection; Strict F1 = 0.713, 12.4% relative improvement for AE Extraction). Motivated by the strong commonalities between AE-related tasks, the class imbalance in AE benchmarks and the linguistic and structural variety typical of social media posts, we propose a new strategy for multi-task training that accounts, at the same time, for task and dataset characteristics. Our multi-task approach increases model robustness, leading to further performance gains. Finally, our framework shows some language transfer capabilities, obtaining higher performance than Multilingual BERT in zero-shot learning on French data.

cs.CL↗

arXiv2021

Did the Cat Drink the Coffee? Challenging Transformers with Generalized Event Knowledge

Prior research has explored the ability of computational models to predict a word semantic fit with a given predicate. While much work has been devoted to modeling the typicality relation between verbs and arguments in isolation, in this paper we take a broader perspective by assessing whether and to what extent computational approaches have access to the information about the typicality of entire events and situations described in language (Generalized Event Knowledge). Given the recent success of Transformers Language Models (TLMs), we decided to test them on a benchmark for the \textit{dynamic estimation of thematic fit}. The evaluation of these models was performed in comparison with SDM, a framework specifically designed to integrate events in sentence meaning representations, and we conducted a detailed error analysis to investigate which factors affect their behavior. Our results show that TLMs can reach performances that are comparable to those achieved by SDM. However, additional analysis consistently suggests that TLMs do not capture important aspects of event knowledge, and their predictions often depend on surface linguistic features, such as frequent words, collocations and syntactic patterns, thereby showing sub-optimal generalization abilities.

cs.CL↗

arXiv2021

Improving Adverse Drug Event Extraction with SpanBERT on Different Text Typologies

In recent years, Internet users are reporting Adverse Drug Events (ADE) on social media, blogs and health forums. Because of the large volume of reports, pharmacovigilance is seeking to resort to NLP to monitor these outlets. We propose for the first time the use of the SpanBERT architecture for the task of ADE extraction: this new version of the popular BERT transformer showed improved capabilities with multi-token text spans. We validate our hypothesis with experiments on two datasets (SMM4H and CADEC) with different text typologies (tweets and blog posts), finding that SpanBERT combined with a CRF outperforms all the competitors on both of them.

cs.CL↗

arXiv2019

A Structured Distributional Model of Sentence Meaning and Processing

Most compositional distributional semantic models represent sentence meaning with a single vector. In this paper, we propose a Structured Distributional Model (SDM) that combines word embeddings with formal semantics and is based on the assumption that sentences represent events and situations. The semantic representation of a sentence is a formal structure derived from Discourse Representation Theory and containing distributional vectors. This structure is dynamically and incrementally built by integrating knowledge about events and their typical participants, as they are activated by lexical items. Event knowledge is modeled as a graph extracted from parsed corpora and encoding roles and relationships between participants that are represented as distributional vectors. SDM is grounded on extensive psycholinguistic research showing that generalized knowledge about events stored in semantic memory plays a key role in sentence comprehension. We evaluate SDM on two recently introduced compositionality datasets, and our results show that combining a simple compositional model with event knowledge constantly improves performances, even with different types of word embeddings.

cs.CL↗

arXiv2018

A Rank-Based Similarity Metric for Word Embeddings

Word Embeddings have recently imposed themselves as a standard for representing word meaning in NLP. Semantic similarity between word pairs has become the most common evaluation benchmark for these representations, with vector cosine being typically used as the only similarity metric. In this paper, we report experiments with a rank-based metric for WE, which performs comparably to vector cosine in similarity estimation and outperforms it in the recently-introduced and challenging task of outlier detection, thus suggesting that rank-based measures can improve clustering quality.

cs.CL↗

arXiv2018

BomJi at SemEval-2018 Task 10: Combining Vector-, Pattern- and Graph-based Information to Identify Discriminative Attributes

This paper describes BomJi, a supervised system for capturing discriminative attributes in word pairs (e.g. yellow as discriminative for banana over watermelon). The system relies on an XGB classifier trained on carefully engineered graph-, pattern- and word embedding based features. It participated in the SemEval- 2018 Task 10 on Capturing Discriminative Attributes, achieving an F1 score of 0:73 and ranking 2nd out of 26 participant systems.

cs.CL↗

arXiv2017

Is Structure Necessary for Modeling Argument Expectations in Distributional Semantics?

Despite the number of NLP studies dedicated to thematic fit estimation, little attention has been paid to the related task of composing and updating verb argument expectations. The few exceptions have mostly modeled this phenomenon with structured distributional models, implicitly assuming a similarly structured representation of events. Recent experimental evidence, however, suggests that human processing system could also exploit an unstructured "bag-of-arguments" type of event representation to predict upcoming input. In this paper, we re-implement a traditional structured model and adapt it to compare the different hypotheses concerning the degree of structure in our event knowledge, evaluating their relative performance in the task of the argument expectations update.

cs.CL↗

arXiv2017

Measuring Thematic Fit with Distributional Feature Overlap

In this paper, we introduce a new distributional method for modeling predicate-argument thematic fit judgments. We use a syntax-based DSM to build a prototypical representation of verb-specific roles: for every verb, we extract the most salient second order contexts for each of its roles (i.e. the most salient dimensions of typical role fillers), and then we compute thematic fit as a weighted overlap between the top features of candidate fillers and role prototypes. Our experiments show that our method consistently outperforms a baseline re-implementing a state-of-the-art system, and achieves better or comparable results to those reported in the literature for the other unsupervised systems. Moreover, it provides an explicit representation of the features characterizing verb-specific semantic roles.

cs.CL↗

arXiv2016

CogALex-V Shared Task: ROOT18

In this paper, we describe ROOT 18, a classifier using the scores of several unsupervised distributional measures as features to discriminate between semantically related and unrelated words, and then to classify the related pairs according to their semantic relation (i.e. synonymy, antonymy, hypernymy, part-whole meronymy). Our classifier participated in the CogALex-V Shared Task, showing a solid performance on the first subtask, but a poor performance on the second subtask. The low scores reported on the second subtask suggest that distributional measures are not sufficient to discriminate between multiple semantic relations at once.

cs.CL↗

arXiv2016

Representing Verbs with Rich Contexts: an Evaluation on Verb Similarity

Several studies on sentence processing suggest that the mental lexicon keeps track of the mutual expectations between words. Current DSMs, however, represent context words as separate features, thereby loosing important information for word expectations, such as word interrelations. In this paper, we present a DSM that addresses this issue by defining verb contexts as joint syntactic dependencies. We test our representation in a verb similarity task on two datasets, showing that joint contexts achieve performances comparable to single dependencies or even better. Moreover, they are able to overcome the data sparsity problem of joint feature spaces, in spite of the limited size of our training corpus.

cs.CL↗

arXiv2016

Testing APSyn against Vector Cosine on Similarity Estimation

In Distributional Semantic Models (DSMs), Vector Cosine is widely used to estimate similarity between word vectors, although this measure was noticed to suffer from several shortcomings. The recent literature has proposed other methods which attempt to mitigate such biases. In this paper, we intend to investigate APSyn, a measure that computes the extent of the intersection between the most associated contexts of two target words, weighting it by context relevance. We evaluated this metric in a similarity estimation task on several popular test sets, and our results show that APSyn is in fact highly competitive, even with respect to the results reported in the literature for word embeddings. On top of it, APSyn addresses some of the weaknesses of Vector Cosine, performing well also on genuine similarity estimation.

cs.CL↗