Clinical natural language processing in languages other than English: opportunities and challenges

A Névéol, H Dalianis, S Velupillai, G Savova… - Journal of biomedical …, 2018‏ - Springer
Background Natural language processing applied to clinical text or aimed at a clinical
outcome has been thriving in recent years. This paper offers the first broad overview of …

An overview of biomedical entity linking throughout the years

E French, BT McInnes - Journal of biomedical informatics, 2023‏ - Elsevier
Abstract Biomedical Entity Linking (BEL) is the task of map** of spans of text within
biomedical documents to normalized, unique identifiers within an ontology. This is an …

[HTML][HTML] Annotated dataset creation through large language models for non-english medical NLP

J Frei, F Kramer - Journal of Biomedical Informatics, 2023‏ - Elsevier
Obtaining text datasets with semantic annotations is an effortful process, yet crucial for
supervised training in natural language processing (NLP). In general, develo** and …

[HTML][HTML] CODER: knowledge-infused cross-lingual medical term embedding for term normalization

Z Yuan, Z Zhao, H Sun, J Li, F Wang, S Yu - Journal of biomedical …, 2022‏ - Elsevier
Objective This paper aims to propose knowledge-aware embedding, a critical tool for
medical term normalization. Methods We develop CODER (Cross-lingual knowledge …

A clinical trials corpus annotated with UMLS entities to enhance the access to evidence-based medicine

L Campillos-Llanos, A Valverde-Mateos… - BMC medical informatics …, 2021‏ - Springer
Background The large volume of medical literature makes it difficult for healthcare
professionals to keep abreast of the latest studies that support Evidence-Based Medicine …

[HTML][HTML] A clinician friendly data warehouse oriented toward narrative reports: Dr. Warehouse

N Garcelon, A Neuraz, R Salomon, H Faour… - Journal of biomedical …, 2018‏ - Elsevier
Introduction Clinical data warehouses are often oriented toward integration and exploration
of coded data. However narrative reports are of crucial importance for translational research …

NLI4CT: Multi-evidence natural language inference for clinical trial reports

M Jullien, M Valentino, H Frost, P O'Regan… - arxiv preprint arxiv …, 2023‏ - arxiv.org
How can we interpret and retrieve medical evidence to support clinical decisions? Clinical
trial reports (CTR) amassed over the years contain indispensable information for the …

[HTML][HTML] GERNERMED++: Semantic annotation in German medical NLP through transfer-learning, translation and word alignment

J Frei, L Frei-Stuber, F Kramer - Journal of Biomedical Informatics, 2023‏ - Elsevier
We present a statistical model, GERNERMED++, for German medical natural language
processing trained for named entity recognition (NER) as an open, publicly available model …

Semantic annotation in biomedicine: the current landscape

J Jovanović, E Bagheri - Journal of biomedical semantics, 2017‏ - Springer
The abundance and unstructured nature of biomedical texts, be it clinical or research
content, impose significant challenges for the effective and efficient use of information and …

Annotation-preserving machine translation of English corpora to validate Dutch clinical concept extraction tools

TM Seinen, JA Kors, EM van Mulligen… - Journal of the …, 2024‏ - academic.oup.com
Objective To explore the feasibility of validating Dutch concept extraction tools using
annotated corpora translated from English, focusing on preserving annotations during …