Event linking connects event mentions in text with relevant nodes in a knowledge base (KB). Prior research in event linking has mainly borrowed methods from entity linking, overlooking the distinct features of events. Compared to the extensively explored entity linking task, events have more complex structures and can be more effectively distinguished by examining their associated arguments. Moreover, the information-rich nature of events leads to the scarcity of event KBs. This emphasizes the need for event linking models to identify and classify event mentions not in the KB as ``out-of-KB,'' an area that has received limited attention. In this work, we tackle these challenges by introducing an argument-aware approach. First, we improve event linking models by augmenting input text with tagged event argument information, facilitating the recognition of key information about event mentions. Subsequently, to help the model handle ``out-of-KB'' scenarios, we synthesize out-of-KB training examples from in-KB instances through controlled manipulation of event arguments. Our experiment across two test datasets showed significant enhancements in both in-KB and out-of-KB scenarios, with a notable 22% improvement in out-of-KB evaluations.
Few-shot named entity recognition (NER) detects named entities within text using only a few annotated examples. One promising line of research is to leverage natural language descriptions of each entity type: the common label PER might, for example, be verbalized as ''person entity.'' In an initial label interpretation learning phase, the model learns to interpret such verbalized descriptions of entity types. In a subsequent few-shot tagset extension phase, this model is then given a description of a previously unseen entity type (such as ''music album'') and optionally a few training examples to perform few-shot NER for this type. In this paper, we systematically explore the impact of a strong semantic prior to interpret verbalizations of new entity types by massively scaling up the number and granularity of entity types used for label interpretation learning. To this end, we leverage an entity linking benchmark to create a dataset with orders of magnitude of more distinct entity types and descriptions as currently used datasets. We find that this increased signal yields strong results in zero- and few-shot NER in in-domain, cross-domain, and even cross-lingual settings. Our findings indicate significant potential for improving few-shot NER through heuristical data-based optimization.
Interest in solving table interpretation tasks has grown over the years, yet it still relies on existing datasets that may be overly simplified. This is potentially reducing the effectiveness of the dataset for thorough evaluation and failing to accurately represent tables as they appear in the real-world. To enrich the existing benchmark datasets, we extract and annotate a new, more challenging dataset. The proposed Wiki-TabNER dataset features complex tables containing several entities per cell, with named entities labeled using DBpedia classes. This dataset is specifically designed to address named entity recognition (NER) task within tables, but it can also be used as a more challenging dataset for evaluating the entity linking task. In this paper we describe the distinguishing features of the Wiki-TabNER dataset and the labeling process. In addition, we propose a prompting framework for evaluating the new large language models on the within tables NER task. Finally, we perform qualitative analysis to gain insights into the challenges encountered by the models and to understand the limitations of the proposed~dataset.
Language-molecule models have emerged as an exciting direction for molecular discovery and understanding. However, training these models is challenging due to the scarcity of molecule-language pair datasets. At this point, datasets have been released which are 1) small and scraped from existing databases, 2) large but noisy and constructed by performing entity linking on the scientific literature, and 3) built by converting property prediction datasets to natural language using templates. In this document, we detail the $\textit{L+M-24}$ dataset, which has been created for the Language + Molecules Workshop shared task at ACL 2024. In particular, $\textit{L+M-24}$ is designed to focus on three key benefits of natural language in molecule design: compositionality, functionality, and abstraction.
In recent years, multi-modal entity linking (MEL) has garnered increasing attention in the research community due to its significance in numerous multi-modal applications. Video, as a popular means of information transmission, has become prevalent in people's daily lives. However, most existing MEL methods primarily focus on linking textual and visual mentions or offline videos's mentions to entities in multi-modal knowledge bases, with limited efforts devoted to linking mentions within online video content. In this paper, we propose a task called Online Video Entity Linking OVEL, aiming to establish connections between mentions in online videos and a knowledge base with high accuracy and timeliness. To facilitate the research works of OVEL, we specifically concentrate on live delivery scenarios and construct a live delivery entity linking dataset called LIVE. Besides, we propose an evaluation metric that considers timelessness, robustness, and accuracy. Furthermore, to effectively handle OVEL task, we leverage a memory block managed by a Large Language Model and retrieve entity candidates from the knowledge base to augment LLM performance on memory management. The experimental results prove the effectiveness and efficiency of our method.
We investigate the task of inserting new concepts extracted from texts into an ontology using language models. We explore an approach with three steps: edge search which is to find a set of candidate locations to insert (i.e., subsumptions between concepts), edge formation and enrichment which leverages the ontological structure to produce and enhance the edge candidates, and edge selection which eventually locates the edge to be placed into. In all steps, we propose to leverage neural methods, where we apply embedding-based methods and contrastive learning with Pre-trained Language Models (PLMs) such as BERT for edge search, and adapt a BERT fine-tuning-based multi-label Edge-Cross-encoder, and Large Language Models (LLMs) such as GPT series, FLAN-T5, and Llama 2, for edge selection. We evaluate the methods on recent datasets created using the SNOMED CT ontology and the MedMentions entity linking benchmark. The best settings in our framework use fine-tuned PLM for search and a multi-label Cross-encoder for selection. Zero-shot prompting of LLMs is still not adequate for the task, and we propose explainable instruction tuning of LLMs for improved performance. Our study shows the advantages of PLMs and highlights the encouraging performance of LLMs that motivates future studies.
Entity Linking (EL) is an essential and challenging task in natural language processing that seeks to link some text representing an entity within a document or sentence with its corresponding entry in a dictionary or knowledge base. Most existing approaches focus on creating elaborate contextual models that look for clues the words surrounding the entity-text to help solve the linking problem. Although these fine-tuned language models tend to work, they can be unwieldy, difficult to train, and do not transfer well to other domains. Fortunately, Large Language Models (LLMs) like GPT provide a highly-advanced solution to the problems inherent in EL models, but simply naive prompts to LLMs do not work well. In the present work, we define ChatEL, which is a three-step framework to prompt LLMs to return accurate results. Overall the ChatEL framework improves the average F1 performance across 10 datasets by more than 2%. Finally, a thorough error analysis shows many instances with the ground truth labels were actually incorrect, and the labels predicted by ChatEL were actually correct. This indicates that the quantitative results presented in this paper may be a conservative estimate of the actual performance. All data and code are available as an open-source package on GitHub at https://github.com/yifding/In_Context_EL.
Although biomedical entity linking (BioEL) has made significant progress with pre-trained language models, challenges still exist for fine-grained and long-tailed entities. To address these challenges, we present BioELQA, a novel model that treats Biomedical Entity Linking as Multiple Choice Question Answering. BioELQA first obtains candidate entities with a fast retriever, jointly presents the mention and candidate entities to a generator, and then outputs the predicted symbol associated with its chosen entity. This formulation enables explicit comparison of different candidate entities, thus capturing fine-grained interactions between mentions and entities, as well as among entities themselves. To improve generalization for long-tailed entities, we retrieve similar labeled training instances as clues and concatenate the input with retrieved instances for the generator. Extensive experimental results show that BioELQA outperforms state-of-the-art baselines on several datasets.
Entity Linking in natural language processing seeks to match text entities to their corresponding entries in a dictionary or knowledge base. Traditional approaches rely on contextual models, which can be complex, hard to train, and have limited transferability across different domains. Generative large language models like GPT offer a promising alternative but often underperform with naive prompts. In this study, we introduce EntGPT, employing advanced prompt engineering to enhance EL tasks. Our three-step hard-prompting method (EntGPT-P) significantly boosts the micro-F_1 score by up to 36% over vanilla prompts, achieving competitive performance across 10 datasets without supervised fine-tuning. Additionally, our instruction tuning method (EntGPT-I) improves micro-F_1 scores by 2.1% on average in supervised EL tasks and outperforms several baseline models in six Question Answering tasks. Our methods are compatible with both open-source and proprietary LLMs. All data and code are available on GitHub at https://github.com/yifding/In_Context_EL.
Recently developed pre-trained text-and-layout models (PTLMs) have shown remarkable success in multiple information extraction tasks on visually-rich documents. However, the prevailing evaluation pipeline may not be sufficiently robust for assessing the information extraction ability of PTLMs, due to inadequate annotations within the benchmarks. Therefore, we claim the necessary standards for an ideal benchmark to evaluate the information extraction ability of PTLMs. We then introduce EC-FUNSD, an entity-centric benckmark designed for the evaluation of semantic entity recognition and entity linking on visually-rich documents. This dataset contains diverse formats of document layouts and annotations of semantic-driven entities and their relations. Moreover, this dataset disentangles the falsely coupled annotation of segment and entity that arises from the block-level annotation of FUNSD. Experiment results demonstrate that state-of-the-art PTLMs exhibit overfitting tendencies on the prevailing benchmarks, as their performance sharply decrease when the dataset bias is removed.
Knowledge Graphs popularity has been rapidly growing in last years. All that knowledge is available for people to query it through the many online databases on the internet. Though, it would be a great achievement if non-programmer users could access whatever information they want to know. There has been a lot of effort oriented to solve this task using natural language processing tools and creativity encouragement by way of many challenges. Our approach focuses on assuming a correct entity linking on the natural language questions and training a GPT model to create SPARQL queries from them. We managed to isolate which property of the task can be the most difficult to solve at few or zero-shot and we proposed pre-training on all entities (under CWA) to improve the performance. We obtained a 62.703% accuracy of exact SPARQL matches on testing at 3-shots, a F1 of 0.809 on the entity linking challenge and a F1 of 0.009 on the question answering challenge.
In Natural Language Processing, entity linking (EL) has centered around Wikipedia, but yet remains underexplored for the job market domain. Disambiguating skill mentions can help us get insight into the current labor market demands. In this work, we are the first to explore EL in this domain, specifically targeting the linkage of occupational skills to the ESCO taxonomy (le Vrang et al., 2014). Previous efforts linked coarse-grained (full) sentences to a corresponding ESCO skill. In this work, we link more fine-grained span-level mentions of skills. We tune two high-performing neural EL models, a bi-encoder (Wu et al., 2020) and an autoregressive model (Cao et al., 2021), on a synthetically generated mention--skill pair dataset and evaluate them on a human-annotated skill-linking benchmark. Our findings reveal that both models are capable of linking implicit mentions of skills to their correct taxonomy counterparts. Empirically, BLINK outperforms GENRE in strict evaluation, but GENRE performs better in loose evaluation (accuracy@$k$).
Wheat varieties show a large diversity of traits and phenotypes. Linking them to genetic variability is essential for shorter and more efficient wheat breeding programs. Newly desirable wheat variety traits include disease resistance to reduce pesticide use, adaptation to climate change, resistance to heat and drought stresses, or low gluten content of grains. Wheat breeding experiments are documented by a large body of scientific literature and observational data obtained in-field and under controlled conditions. The cross-referencing of complementary information from the literature and observational data is essential to the study of the genotype-phenotype relationship and to the improvement of wheat selection. The scientific literature on genetic marker-assisted selection describes much information about the genotype-phenotype relationship. However, the variety of expressions used to refer to traits and phenotype values in scientific articles is a hinder to finding information and cross-referencing it. When trained adequately by annotated examples, recent text mining methods perform highly in named entity recognition and linking in the scientific domain. While several corpora contain annotations of human and animal phenotypes, currently, no corpus is available for training and evaluating named entity recognition and entity-linking methods in plant phenotype literature. The Triticum aestivum trait Corpus is a new gold standard for traits and phenotypes of wheat. It consists of 540 PubMed references fully annotated for trait, phenotype, and species named entities using the Wheat Trait and Phenotype Ontology and the species taxonomy of the National Center for Biotechnology Information. A study of the performance of tools trained on the Triticum aestivum trait Corpus shows that the corpus is suitable for the training and evaluation of named entity recognition and linking.
Pre-trained language models (PLMs) have been prevailing in state-of-the-art methods for natural language processing, and knowledge-enhanced PLMs are further proposed to promote model performance in knowledge-intensive tasks. However, conceptual knowledge, one essential kind of knowledge for human cognition, still remains understudied in this line of research. This limits PLMs' performance in scenarios requiring human-like cognition, such as understanding long-tail entities with concepts. In this paper, we propose ConcEPT, which stands for Concept-Enhanced Pre-Training for language models, to infuse conceptual knowledge into PLMs. ConcEPT exploits external taxonomies with entity concept prediction, a novel pre-training objective to predict the concepts of entities mentioned in the pre-training contexts. Unlike previous concept-enhanced methods, ConcEPT can be readily adapted to various downstream applications without entity linking or concept mapping. Results of extensive experiments show the effectiveness of ConcEPT in four tasks such as entity typing, which validates that our model gains improved conceptual knowledge with concept-enhanced pre-training.
Biomedical entity linking (BEL) is the task of grounding entity mentions to a knowledge base (KB). A popular approach to the task are name-based methods, i.e. those identifying the most appropriate name in the KB for a given mention, either via dense retrieval or autoregressive modeling. However, as these methods directly return KB names, they cannot cope with homonyms, i.e. different KB entities sharing the exact same name. This significantly affects their performance, especially for KBs where homonyms account for a large amount of entity mentions (e.g. UMLS and NCBI Gene). We therefore present BELHD (Biomedical Entity Linking with Homonym Disambiguation), a new name-based method that copes with this challenge. Specifically, BELHD builds upon the BioSyn (Sung et al.,2020) model introducing two crucial extensions. First, it performs a preprocessing of the KB in which it expands homonyms with an automatically chosen disambiguating string, thus enforcing unique linking decisions. Second, we introduce candidate sharing, a novel strategy to select candidates for contrastive learning that enhances the overall training signal. Experiments with 10 corpora and five entity types show that BELHD improves upon state-of-the-art approaches, achieving the best results in 6 out 10 corpora with an average improvement of 4.55pp recall@1. Furthermore, the KB preprocessing is orthogonal to the core prediction model and thus can also improve other methods, which we exemplify for GenBioEL (Yuan et al, 2022), a generative name-based BEL approach. Code is available at: link added upon publication.
Multimodal Entity Linking (MEL) aims at linking ambiguous mentions with multimodal information to entity in Knowledge Graph (KG) such as Wikipedia, which plays a key role in many applications. However, existing methods suffer from shortcomings, including modality impurity such as noise in raw image and ambiguous textual entity representation, which puts obstacles to MEL. We formulate multimodal entity linking as a neural text matching problem where each multimodal information (text and image) is treated as a query, and the model learns the mapping from each query to the relevant entity from candidate entities. This paper introduces a dual-way enhanced (DWE) framework for MEL: (1) our model refines queries with multimodal data and addresses semantic gaps using cross-modal enhancers between text and image information. Besides, DWE innovatively leverages fine-grained image attributes, including facial characteristic and scene feature, to enhance and refine visual features. (2)By using Wikipedia descriptions, DWE enriches entity semantics and obtains more comprehensive textual representation, which reduces between textual representation and the entities in KG. Extensive experiments on three public benchmarks demonstrate that our method achieves state-of-the-art (SOTA) performance, indicating the superiority of our model. The code is released on https://github.com/season1blue/DWE
Biomedical entity linking (BioEL) has achieved remarkable progress with the help of pre-trained language models. However, existing BioEL methods usually struggle to handle rare and difficult entities due to long-tailed distribution. To address this limitation, we introduce a new scheme $k$NN-BioEL, which provides a BioEL model with the ability to reference similar instances from the entire training corpus as clues for prediction, thus improving the generalization capabilities. Moreover, we design a contrastive learning objective with dynamic hard negative sampling (DHNS) that improves the quality of the retrieved neighbors during inference. Extensive experimental results show that $k$NN-BioEL outperforms state-of-the-art baselines on several datasets.
Mapping ongoing news headlines to event-related classes in a rich knowledge base can be an important component in a knowledge-based event analysis and forecasting solution. In this paper, we present a methodology for creating a benchmark dataset of news headlines mapped to event classes in Wikidata, and resources for the evaluation of methods that perform the mapping. We use the dataset to study two classes of unsupervised methods for this task: 1) adaptations of classic entity linking methods, and 2) methods that treat the problem as a zero-shot text classification problem. For the first approach, we evaluate off-the-shelf entity linking systems. For the second approach, we explore a) pre-trained natural language inference (NLI) models, and b) pre-trained large generative language models. We present the results of our evaluation, lessons learned, and directions for future work. The dataset and scripts for evaluation are made publicly available.
Recent work in Natural Language Processing and Computer Vision has been using textual information -- e.g., entity names and descriptions -- available in knowledge graphs to ground neural models to high-quality structured data. However, when it comes to non-English languages, the quantity and quality of textual information are comparatively scarce. To address this issue, we introduce the novel task of automatic Knowledge Graph Enhancement (KGE) and perform a thorough investigation on bridging the gap in both the quantity and quality of textual information between English and non-English languages. More specifically, we: i) bring to light the problem of increasing multilingual coverage and precision of entity names and descriptions in Wikidata; ii) demonstrate that state-of-the-art methods, namely, Machine Translation (MT), Web Search (WS), and Large Language Models (LLMs), struggle with this task; iii) present M-NTA, a novel unsupervised approach that combines MT, WS, and LLMs to generate high-quality textual information; and, iv) study the impact of increasing multilingual coverage and precision of non-English textual information in Entity Linking, Knowledge Graph Completion, and Question Answering. As part of our effort towards better multilingual knowledge graphs, we also introduce WikiKGE-10, the first human-curated benchmark to evaluate KGE approaches in 10 languages across 7 language families.
While the potential of Open Information Extraction (Open IE) for Knowledge Graph Construction (KGC) may seem promising, we find that the alignment of Open IE extraction results with existing knowledge graphs to be inadequate. The advent of Large Language Models (LLMs), especially the commercially available OpenAI models, have reset expectations for what is possible with deep learning models and have created a new field called prompt engineering. We investigate the use of GPT models and prompt engineering for knowledge graph construction with the Wikidata knowledge graph to address a similar problem to Open IE, which we call Open Knowledge Extraction (OKE) using an approach we call the Linked Open Knowledge Extractor (LOKE, pronounced like "Loki"). We consider the entity linking task essential to construction of real world knowledge graphs. We merge the CaRB benchmark scoring approach with data from the TekGen dataset for the LOKE task. We then show that a well engineered prompt, paired with a naive entity linking approach (which we call LOKE-GPT), outperforms AllenAI's OpenIE 4 implementation on the OKE task, although it over-generates triples compared to the reference set due to overall triple scarcity in the TekGen set. Through an analysis of entity linkability in the CaRB dataset, as well as outputs from OpenIE 4 and LOKE-GPT, we see that LOKE-GPT and the "silver" TekGen triples show that the task is significantly different in content from OIE, if not structure. Through this analysis and a qualitative analysis of sentence extractions via all methods, we found that LOKE-GPT extractions are of high utility for the KGC task and suitable for use in semi-automated extraction settings.