Related papers: BioNerFlair: biomedical named entity recognition u…
The task of Named Entity Recognition (NER) is an important component of many natural language processing systems, such as relation extraction and knowledge graph construction. In this work, we present a simple and effective approach for…
Financial named entity recognition (FinNER) from literature is a challenging task in the field of financial text information extraction, which aims to extract a large amount of financial knowledge from unstructured texts. It is widely…
Objective: This study quantifies the capabilities of GPT-3.5 and GPT-4 for clinical named entity recognition (NER) tasks and proposes task-specific prompts to improve their performance. Materials and Methods: We evaluated these models on…
This paper is a technical report on our system submitted to the chemical identification task of the BioCreative VII Track 2 challenge. The main feature of this challenge is that the data consists of full-text articles, while current…
Medical Entity Recognition (MedER) is an essential NLP task for extracting meaningful entities from the medical corpus. Nowadays, MedER-based research outcomes can remarkably contribute to the development of automated systems in the medical…
The recognition of pharmacological substances, compounds and proteins is an essential preliminary work for the recognition of relations between chemicals and other biomedically relevant units. In this paper, we describe an approach to Task…
Monitoring the administration of drugs and adverse drug reactions are key parts of pharmacovigilance. In this paper, we explore the extraction of drug mentions and drug-related information (reason for taking a drug, route, frequency,…
Named Entity Recognition (NER) and Relation Extraction (RE) are essential tools in distilling knowledge from biomedical literature. This paper presents our findings from participating in BioNLP Shared Tasks 2019. We addressed Named Entity…
Clinical concept extraction often begins with clinical Named Entity Recognition (NER). Often trained on annotated clinical notes, clinical NER models tend to struggle with tagging clinical entities in user queries because of the structural…
Named entity recognition is a key component of Information Extraction (IE), particularly in scientific domains such as biomedicine and chemistry, where large language models (LLMs), e.g., ChatGPT, fall short. We investigate the…
Deep neural models for named entity recognition (NER) have shown impressive results in overcoming label scarcity and generalizing to unseen entities by leveraging distant supervision and auxiliary information such as explanations. However,…
Clinical Named Entity Recognition (CNER) aims to identify and classify clinical terms such as diseases, symptoms, treatments, exams, and body parts in electronic health records, which is a fundamental and crucial task for clinical and…
In this report, we describe our participant named-entity recognition system at VLSP 2018 evaluation campaign. We formalized the task as a sequence labeling problem using BIO encoding scheme. We applied a feature-based model which combines…
FDA Medical Device recalls are critical and time-sensitive events, requiring swift identification of impacted devices to inform the public of a recall event and ensure patient safety. The OpenFDA device recall dataset contains valuable…
Biomedical queries have become increasingly prevalent in web searches, reflecting the growing interest in accessing biomedical literature. Despite recent research on large-language models (LLMs) motivated by endeavours to attain generalized…
Text mining and information extraction for the medical domain has focused on scientific text generated by researchers. However, their direct access to individual patient experiences or patient-doctor interactions can be limited. Information…
Clinical data in hospitals are increasingly accessible for research through clinical data warehouses. However these documents are unstructured and it is therefore necessary to extract information from medical reports to conduct clinical…
In this article, we present a gold-standard benchmark dataset for Biomedical Urdu Named Entity Recognition (BioUNER), developed by crawling health-related articles from online Urdu news portals, medical prescriptions, and hospital health…
We present a simple approach to improve biomedical named entity recognition (NER) by injecting categorical labels and Part-of-speech (POS) information into the model. We use two approaches, in the first approach, we first train a…
Named Entity Recognition (NER) is an important subtask of information extraction that seeks to locate and recognise named entities. Despite recent achievements, we still face limitations with correctly detecting and classifying entities,…