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Recognition of biomedical entities from literature is a challenging research focus, which is the foundation for extracting a large amount of biomedical knowledge existing in unstructured texts into structured formats. Using the sequence…

Computation and Language · Computer Science 2021-05-18 Cong Sun , Zhihao Yang , Lei Wang , Yin Zhang , Hongfei Lin , Jian Wang

Contextual word embedding models, such as BioBERT and Bio_ClinicalBERT, have achieved state-of-the-art results in biomedical natural language processing tasks by focusing their pre-training process on domain-specific corpora. However, such…

Computation and Language · Computer Science 2021-06-04 George Michalopoulos , Yuanxin Wang , Hussam Kaka , Helen Chen , Alexander Wong

Resolving pronoun coreference requires knowledge support, especially for particular domains (e.g., medicine). In this paper, we explore how to leverage different types of knowledge to better resolve pronoun coreference with a neural model.…

Computation and Language · Computer Science 2019-07-09 Hongming Zhang , Yan Song , Yangqiu Song , Dong Yu

Contextual word representations, typically trained on unstructured, unlabeled text, do not contain any explicit grounding to real world entities and are often unable to remember facts about those entities. We propose a general method to…

Computation and Language · Computer Science 2019-11-01 Matthew E. Peters , Mark Neumann , Robert L. Logan , Roy Schwartz , Vidur Joshi , Sameer Singh , Noah A. Smith

This paper proposes a knowledge-enhanced disease diagnosis method based on a prompt learning framework. The method retrieves structured knowledge from external knowledge graphs related to clinical cases, encodes it, and injects it into the…

Computation and Language · Computer Science 2024-09-17 Zhang Zheng

Recent developments in online communication and their usage in everyday life have caused an explosion in the amount of a new genre of text data, short text. Thus, the need to classify this type of text based on its content has a significant…

Computation and Language · Computer Science 2024-09-10 Bruno D. Ferreira-Saraiva , Zuil Pirola , João P. Matos-Carvalho , Manuel Marques-Pita

Identification of key variables such as medications, diseases, relations from health records and clinical notes has a wide range of applications in the clinical domain. n2c2 2022 provided shared tasks on challenges in natural language…

Computation and Language · Computer Science 2025-07-01 Shouvon Sarker , Xishuang Dong , Lijun Qian

Contextual word embedding models such as ELMo (Peters et al., 2018) and BERT (Devlin et al., 2018) have dramatically improved performance for many natural language processing (NLP) tasks in recent months. However, these models have been…

Computation and Language · Computer Science 2019-06-24 Emily Alsentzer , John R. Murphy , Willie Boag , Wei-Hung Weng , Di Jin , Tristan Naumann , Matthew B. A. McDermott

In this paper we study the problem of predicting clinical diagnoses from textual Electronic Health Records (EHR) data. We show the importance of this problem in medical community and present comprehensive historical review of the problem…

Computation and Language · Computer Science 2020-09-29 Pavel Blinov , Manvel Avetisian , Vladimir Kokh , Dmitry Umerenkov , Alexander Tuzhilin

The availability of biomedical text data and advances in natural language processing (NLP) have made new applications in biomedical NLP possible. Language models trained or fine tuned using domain specific corpora can outperform general…

Computation and Language · Computer Science 2021-07-12 Usman Naseem , Adam G. Dunn , Matloob Khushi , Jinman Kim

The Internet has revolutionized healthcare by offering medical information ubiquitously to patients via web search. The healthcare status, complex medical information needs of patients are expressed diversely and implicitly in their medical…

Computation and Language · Computer Science 2017-10-24 Chenwei Zhang , Nan Du , Wei Fan , Yaliang Li , Chun-Ta Lu , Philip S. Yu

The escalating volume of collected healthcare textual data presents a unique challenge for automated Multi-Label Text Classification (MLTC), which is primarily due to the scarcity of annotated texts for training and their nuanced nature.…

Computation and Language · Computer Science 2025-03-04 Hajar Sakai , Sarah S. Lam

Motivated by the emerging demand in the financial industry for the automatic analysis of unstructured and structured data at scale, Question Answering (QA) systems can provide lucrative and competitive advantages to companies by…

Computation and Language · Computer Science 2025-05-05 Bithiah Yuan

Question answering (QA) systems have gained explosive attention in recent years. However, QA tasks in Vietnamese do not have many datasets. Significantly, there is mostly no dataset in the medical domain. Therefore, we built a Vietnamese…

Computation and Language · Computer Science 2022-06-22 Nhung Thi-Hong Nguyen , Phuong Phan-Dieu Ha , Luan Thanh Nguyen , Kiet Van Nguyen , Ngan Luu-Thuy Nguyen

We present a system that constructs and maintains an up-to-date co-occurrence network of medical concepts based on continuously mining the latest biomedical literature. Users can explore this network visually via a concise online interface…

Information Retrieval · Computer Science 2015-03-20 Alexei Yavlinsky

Clinical notes contain an abundance of important but not-readily accessible information about patients. Systems to automatically extract this information rely on large amounts of training data for which their exists limited resources to…

Computation and Language · Computer Science 2020-04-23 Andriy Mulyar , Bridget T. McInnes

The processing of entities in natural language is essential to many medical NLP systems. Unfortunately, existing datasets vastly under-represent the entities required to model public health relevant texts such as health advice often found…

Computation and Language · Computer Science 2022-10-10 Joseph Gatto , Parker Seegmiller , Garrett Johnston , Sarah M. Preum

Social telehealth has revolutionized healthcare by enabling patients to share symptoms and receive medical consultations remotely. Users frequently post symptoms on social media and online health platforms, generating a vast repository of…

Computation and Language · Computer Science 2025-02-04 Malak Mohamed , Rokaia Emad , Ali Hamdi

The extraction and analysis of insights from medical data, primarily stored in free-text formats by healthcare workers, presents significant challenges due to its unstructured nature. Medical coding, a crucial process in healthcare, remains…

Computation and Language · Computer Science 2024-05-28 Mikhail Kulyabin , Gleb Sokolov , Aleksandr Galaida , Andreas Maier , Tomas Arias-Vergara

The field of natural language processing (NLP) has made significant progress with the rapid development of deep learning technologies. One of the research directions in text sentiment analysis is sentiment analysis of medical texts, which…

Computation and Language · Computer Science 2024-12-04 Yinan Chen