During this pandemic situation, extracting any relevant information related to COVID-19 will be immensely beneficial to the community at large. In this paper, we present a very important resource, COVIDRead, a Stanford Question Answering Dataset (SQuAD) like dataset over more than 100k question-answer pairs. The dataset consists of Context-Answer-Question triples. Primarily the questions from the context are constructed in an automated way. After that, the system-generated questions are manually checked by hu-mans annotators. This is a precious resource that could serve many purposes, ranging from common people queries regarding this very uncommon disease to managing articles by editors/associate editors of a journal. We establish several end-to-end neural network based baseline models that attain the lowest F1 of 32.03% and the highest F1 of 37.19%. To the best of our knowledge, we are the first to provide this kind of QA dataset in such a large volume on COVID-19. This dataset creates a new avenue of carrying out research on COVID-19 by providing a benchmark dataset and a baseline model.
Technische Universität Dresden（德累斯顿工业大学）；Friedrich-Alexander-Universität Erlangen-Nürnberg（弗里德里希-亚历山大-埃尔兰根-纽伦堡大学）；Otto-von-Guericke-Universität Magdeburg（奥托·冯·格里克大学马格德堡）
The COVID-19 pandemic is accompanied by a massive "infodemic" that makes it hard to identify concise and credible information for COVID-19-related questions, like incubation time, infection rates, or the effectiveness of vaccines. As a novel solution, our paper is concerned with designing a question-answering system based on modern technologies from natural language processing to overcome information overload and misinformation in pandemic situations. To carry out our research, we followed a design science research approach and applied Ingwersen's cognitive model of information retrieval inter…
University of Waterloo（滑铁卢大学）；New York University（纽约大学）；Facebook AI Research（Facebook人工智能研究院）
We present CovidQA, the beginnings of a question answering dataset specifically designed for COVID-19, built by hand from knowledge gathered from Kaggle's COVID-19 Open Research Dataset Challenge. To our knowledge, this is the first publicly available resource of its type, and intended as a stopgap measure for guiding research until more substantial evaluation resources become available. While this dataset, comprising 124 question-article pairs as of the present version 0.1 release, does not have sufficient examples for supervised machine learning, we believe that it can be helpful for evaluat…
The recent outbreak of the novel coronavirus is wreaking havoc on the world and researchers are struggling to effectively combat it. One reason why the fight is difficult is due to the lack of information and knowledge. In this work, we outline our effort to contribute to shrinking this knowledge vacuum by creating covidAsk, a question answering (QA) system that combines biomedical text mining and QA techniques to provide answers to questions in real-time. Our system also leverages information retrieval (IR) approaches to provide entity-level answers that are complementary to QA models. Evalua…
Vector Institute for Artificial Intelligence（矢量人工智能研究所）；University of Toronto（多伦多大学）
In response to the Kaggle's COVID-19 Open Research Dataset (CORD-19) challenge, we have proposed three transformer-based question-answering systems using BERT, ALBERT, and T5 models. Since the CORD-19 dataset is unlabeled, we have evaluated the question-answering models' performance on two labeled questions answers datasets \textemdash CovidQA and CovidGQA. The BERT-based QA system achieved the highest F1 score (26.32), while the ALBERT-based QA system achieved the highest Exact Match (13.04). However, numerous challenges are associated with developing high-performance question-answering syste…
The COVID-19 global pandemic has resulted in international efforts to understand, track, and mitigate the disease, yielding a significant corpus of COVID-19 and SARS-CoV-2-related publications across scientific disciplines. As of May 2020, 128,000 coronavirus-related publications have been collected through the COVID-19 Open Research Dataset Challenge. Here we present CO-Search, a retriever-ranker semantic search engine designed to handle complex queries over the COVID-19 literature, potentially aiding overburdened health workers in finding scientific answers during a time of crisis. The retri…
As COVID-19 ravages the world, social media analytics could augment traditional surveys in assessing how the pandemic evolves and capturing consumer chatter that could help healthcare agencies in addressing it. This typically involves mining disclosure events that mention testing positive for the disease or discussions surrounding perceptions and beliefs in preventative or treatment options. The 2020 shared task on COVID-19 event extraction (conducted as part of the W-NUT workshop during the EMNLP conference) introduced a new Twitter dataset for benchmarking event extraction from COVID-19 twee…
We present CAiRE-COVID, a real-time question answering (QA) and multi-document summarization system, which won one of the 10 tasks in the Kaggle COVID-19 Open Research Dataset Challenge, judged by medical experts. Our system aims to tackle the recent challenge of mining the numerous scientific articles being published on COVID-19 by answering high priority questions from the community and summarizing salient question-related information. It combines information extraction with state-of-the-art QA and query-focused multi-document summarization techniques, selecting and highlighting evidence sni…
University of California, Santa Barbara（加利福尼亚大学圣巴巴拉分校）；Princeton University（普林斯顿大学）
Since late 2019, COVID-19 has quickly emerged as the newest biomedical domain, resulting in a surge of new information. As with other emergent domains, the discussion surrounding the topic has been rapidly changing, leading to the spread of misinformation. This has created the need for a public space for users to ask questions and receive credible, scientific answers. To fulfill this need, we turn to the task of open-domain question-answering, which we can use to efficiently find answers to free-text questions from a large set of documents. In this work, we present such a system for the emerge…
University of Information Technology（信息技术大学）；VNU-HCM（胡志明市国家大学）
For the last two years, from 2020 to 2021, COVID-19 has broken disease prevention measures in many countries, including Vietnam, and negatively impacted various aspects of human life and the social community. Besides, the misleading information in the community and fake news about the pandemic are also serious situations. Therefore, we present the first Vietnamese community-based question answering dataset for developing question answering systems for COVID-19 called UIT-ViCoV19QA. The dataset comprises 4,500 question-answer pairs collected from trusted medical sources, with at least one answe…
COVID-19 has resulted in an ongoing pandemic and as of 12 June 2020, has caused more than 7.4 million cases and over 418,000 deaths. The highly dynamic and rapidly evolving situation with COVID-19 has made it difficult to access accurate, on-demand information regarding the disease. Online communities, forums, and social media provide potential venues to search for relevant questions and answers, or post questions and seek answers from other members. However, due to the nature of such sites, there are always a limited number of relevant questions and responses to search from, and posted questi…
Indian Institute of Technology Kharagpur（印度理工学院卡哈拉格普尔分校）；University of Manchester（曼彻斯特大学）；University of Technology Sydney（悉尼科技大学）
Increasing number of COVID-19 research literatures cause new challenges in effective literature screening and COVID-19 domain knowledge aware Information Retrieval. To tackle the challenges, we demonstrate two tasks along withsolutions, COVID-19 literature retrieval, and question answering. COVID-19 literature retrieval task screens matching COVID-19 literature documents for textual user query, and COVID-19 question answering task predicts proper text fragments from text corpus as the answer of specific COVID-19 related questions. Based on transformer neural network, we provided solutions to i…
University of Illinois, Urbana Champaign（伊利诺伊大学厄巴纳-香槟分校）；IBM Research AI（IBM研究院人工智能部门）
End-to-end question answering (QA) requires both information retrieval (IR) over a large document collection and machine reading comprehension (MRC) on the retrieved passages. Recent work has successfully trained neural IR systems using only supervised question answering (QA) examples from open-domain datasets. However, despite impressive performance on Wikipedia, neural IR lags behind traditional term matching approaches such as BM25 in more specific and specialized target domains such as COVID-19. Furthermore, given little or no labeled data, effective adaptation of QA systems can also be ch…
Research Institute for AI “Mihai Drăgănescu”（“米哈伊·德勒格内斯库”人工智能研究所）
The paper presents an open-domain Question Answering system for Romanian, answering COVID-19 related questions. The QA system pipeline involves automatic question processing, automatic query generation, web searching for the top 10 most relevant documents and answer extraction using a fine-tuned BERT model for Extractive QA, trained on a COVID-19 data set that we have manually created. The paper will present the QA system and its integration with the Romanian language technologies portal RELATE, the COVID-19 data set and different evaluations of the QA performance.
In this work, we release COVID-Twitter-BERT (CT-BERT), a transformer-based model, pretrained on a large corpus of Twitter messages on the topic of COVID-19. Our model shows a 10-30% marginal improvement compared to its base model, BERT-Large, on five different classification datasets. The largest improvements are on the target domain. Pretrained transformer models, such as CT-BERT, are trained on a specific target domain and can be used for a wide variety of natural language processing tasks, including classification, question-answering and chatbots. CT-BERT is optimised to be used on COVID-19…
This paper presents Macquarie University's participation to the two most recent BioASQ Synergy Tasks (as per June 2022), and to the BioASQ10 Task~B (BioASQ10b), Phase~B. In these tasks, participating systems are expected to generate complex answers to biomedical questions, where the answers may contain more than one sentence. We apply query-focused extractive summarisation techniques. In particular, we follow a sentence classification-based approach that scores each candidate sentence associated to a question, and the $n$ highest-scoring sentences are returned as the answer. The Synergy Task c…
University of Information Technology（信息技术大学）；HUTECH University（胡志明市工业大学）；Griffith University（格里菲斯大学）
Question answering over knowledge bases (KBQA) has become a popular approach to help users extract information from knowledge bases. Although several systems exist, choosing one suitable for a particular application scenario is difficult. In this article, we provide a comparative study of six representative KBQA systems on eight benchmark datasets. In that, we study various question types, properties, languages, and domains to provide insights on where existing systems struggle. On top of that, we propose an advanced mapping algorithm to aid existing models in achieving superior results. Moreo…
Domain adaptation of Pretrained Language Models (PTLMs) is typically achieved by unsupervised pretraining on target-domain text. While successful, this approach is expensive in terms of hardware, runtime and CO_2 emissions. Here, we propose a cheaper alternative: We train Word2Vec on target-domain text and align the resulting word vectors with the wordpiece vectors of a general-domain PTLM. We evaluate on eight biomedical Named Entity Recognition (NER) tasks and compare against the recently proposed BioBERT model. We cover over 60% of the BioBERT-BERT F1 delta, at 5% of BioBERT's CO_2 footprin…
Agencia Española de Medicamentos y Productos Sanitarios (AEMPS)（西班牙药品和健康产品局）
In this paper we present the first system in Spanish capable of answering questions about medicines for human use, called MeQA (Medicines Question Answering), a project created by the Spanish Agency for Medicines and Health Products (AEMPS, for its acronym in Spanish). Online services that offer medical help have proliferated considerably, mainly due to the current pandemic situation due to COVID-19. For example, websites such as Doctoralia, Savia, or SaludOnNet, offer Doctor Answers type consultations, in which patients or users can send questions to doctors and specialists, and receive an an…
COVID-19 Literature Knowledge Graph Construction and Drug Repurposing Report Generation
University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）；Columbia University（哥伦比亚大学）；Brandeis University（布兰迪斯大学）；University of Washington（华盛顿大学）；University of California, Los Angeles（加利福尼亚大学洛杉矶分校）；Colorado University（科罗拉多大学）；Army Research Lab（陆军研究实验室）；QS2；Department of Defense（国防部）
In this paper, we describe our approach in the shared task: COVID-19 event extraction from Twitter. The objective of this task is to extract answers from COVID-related tweets to a set of predefined slot-filling questions. Our approach treats the event extraction task as a question answering task by leveraging the transformer-based T5 text-to-text model. According to the official evaluation scores returned, namely F1, our submitted run achieves competitive performance compared to other participating runs (Top 3). However, we argue that this evaluation may underestimate the actual performance of…
National Center for Biotechnology Information（国家生物技术信息中心）；National Library of Medicine（国家医学图书馆）；National Institutes of Health（国立卫生研究院）
The COVID-19 pandemic has had a significant impact on society, both because of the serious health effects of COVID-19 and because of public health measures implemented to slow its spread. Many of these difficulties are fundamentally information needs; attempts to address these needs have caused an information overload for both researchers and the public. Natural language processing (NLP), the branch of artificial intelligence that interprets human language, can be applied to address many of the information needs made urgent by the COVID-19 pandemic. This review surveys approximately 150 NLP st…
Aristotle University of Thessaloniki（塞萨洛尼基亚里士多德大学）；Barcelona Supercomputing Center（巴塞罗那超级计算中心）
Advancing the state-of-the-art in large-scale biomedical semantic indexing and question answering is the main focus of the BioASQ challenge. BioASQ organizes respective tasks where different teams develop systems that are evaluated on the same benchmark datasets that represent the real information needs of experts in the biomedical domain. This paper presents an overview of the ninth edition of the BioASQ challenge in the context of the Conference and Labs of the Evaluation Forum (CLEF) 2021. In this year, a new question answering task, named Synergy, is introduced to support researchers study…
University of California, Santa Barbara（加利福尼亚大学圣巴巴拉分校）
Open-retrieval question answering systems are generally trained and tested on large datasets in well-established domains. However, low-resource settings such as new and emerging domains would especially benefit from reliable question answering systems. Furthermore, multilingual and cross-lingual resources in emergent domains are scarce, leading to few or no such systems. In this paper, we demonstrate a cross-lingual open-retrieval question answering system for the emergent domain of COVID-19. Our system adopts a corpus of scientific articles to ensure that retrieved documents are reliable. To …
Demo: Guide-RAG: Evidence-Driven Corpus Curation for Retrieval-Augmented Generation in Long COVID
Department of Computer Science University of Texas at Austin（计算机科学系得克萨斯大学奥斯汀分校）；School of Information University of Texas at Austin（信息学院得克萨斯大学奥斯汀分校）；McCombs School of Business University of Texas at Austin（麦库姆斯商学院得克萨斯大学奥斯汀分校）；Dell Medical School University of Texas at Austin（德克萨斯大学奥斯汀分校戴尔医学学院）
This paper presents Macquarie University's participation to the BioASQ Synergy Task, and BioASQ9b Phase B. In each of these tasks, our participation focused on the use of query-focused extractive summarisation to obtain the ideal answers to medical questions. The Synergy Task is an end-to-end question answering task on COVID-19 where systems are required to return relevant documents, snippets, and answers to a given question. Given the absence of training data, we used a query-focused summarisation system that was trained with the BioASQ8b training data set and we experimented with methods to …
People increasingly search online for answers to their medical questions but the rate at which medical questions are asked online significantly exceeds the capacity of qualified people to answer them. This leaves many questions unanswered or inadequately answered. Many of these questions are not unique, and reliable identification of similar questions would enable more efficient and effective question answering schema. COVID-19 has only exacerbated this problem. Almost every government agency and healthcare organization has tried to meet the informational need of users by building online FAQs,…
Word-Sequence Entropy: Towards Uncertainty Estimation in Free-Form Medical Question Answering Applications and Beyond
University of Electronic Science and Technology of China（电子科技大学）；Drexel University（德雷塞尔大学）；University of Pennsylvania（宾夕法尼亚大学）；Yale University（耶鲁大学）；Massachusetts Institute of Technology（麻省理工学院）；Illinois Institute of Technology（伊利诺伊理工学院）
The Epidemic Question Answering (EPIC-QA) track at the Text Analysis Conference (TAC) is an evaluation of methodologies for answering ad-hoc questions about the COVID-19 disease. This paper describes our participation in both tasks of EPIC-QA, targeting: (1) Expert QA and (2) Consumer QA. Our methods used a multi-phase neural Information Retrieval (IR) system based on combining BM25, BERT, and T5 as well as the idea of considering entailment relations between the original question and questions automatically generated from answer candidate sentences. Moreover, because entailment relations were…
Utilizing Large Language Models for Named Entity Recognition in Traditional Chinese Medicine against COVID-19 Literature: Comparative Study
China Academy of Chinese Medical Sciences（中国中医科学院）；GESIS—Leibniz Institute for the Social Sciences（GESIS——莱布尼茨社会科学研究所）；University of Bonn（波恩大学）；Capital Medical University（首都医科大学）
Introductory hands-on courses such as our smartphone-based coding course, SuaCode require a lot of support for students to accomplish learning goals. Online environments make it even more difficult to get assistance especially more recently because of COVID-19. Given the multilingual context of SuaCode students - learners across 42 African countries that are mostly Anglophone or Francophone - in this work, we developed a bilingual Artificial Intelligence (AI) Teaching Assistant (TA) - Kwame - that provides answers to students' coding questions from SuaCode courses in English and French. Kwame …
Understanding who blames or supports whom in news text is a critical research question in computational social science. Traditional methods and datasets for sentiment analysis are, however, not suitable for the domain of political text as they do not consider the direction of sentiments expressed between entities. In this paper, we propose a novel NLP task of identifying directed sentiment relationship between political entities from a given news document, which we call directed sentiment extraction. From a million-scale news corpus, we construct a dataset of news sentences where sentiment rel…
School of Electrical and Computing Engineering, UNICAMP（坎皮纳斯州立大学电气与计算机工程学院）；NeuralMind Inteligência Artificial（NeuralMind 人工智能（公司））；David R. Cheriton School of Computer Science, University of Waterloo（滑铁卢大学大卫·R·谢里顿计算机科学学院）
What are the latent questions on some textual data? In this work, we investigate using question generation models for exploring a collection of documents. Our method, dubbed corpus2question, consists of applying a pre-trained question generation model over a corpus and aggregating the resulting questions by frequency and time. This technique is an alternative to methods such as topic modelling and word cloud for summarizing large amounts of textual data. Results show that applying corpus2question on a corpus of scientific articles related to COVID-19 yields relevant questions about the topic. …
The novel coronavirus disease 2019 (COVID-19) began in Wuhan, China in late 2019 and to date has infected over 14M people worldwide, resulting in over 750,000 deaths. On March 10, 2020 the World Health Organization (WHO) declared the outbreak a global pandemic. Many academics and researchers, not restricted to the medical domain, began publishing papers describing new discoveries. However, with the large influx of publications, it was hard for these individuals to sift through the large amount of data and make sense of the findings. The White House and a group of industry research labs, lead b…
University of Warwick（华威大学）；The Alan Turing Institute（艾伦·图灵研究所）；Queen Mary University of London（伦敦玛丽女王大学）
Biomedical question-answering (QA) has gained increased attention for its capability to provide users with high-quality information from a vast scientific literature. Although an increasing number of biomedical QA datasets has been recently made available, those resources are still rather limited and expensive to produce. Transfer learning via pre-trained language models (LMs) has been shown as a promising approach to leverage existing general-purpose knowledge. However, finetuning these large models can be costly and time consuming, often yielding limited benefits when adapting to specific th…
