Journal of the American Medical Informatics Association : JAMIA
Apr 27, 2016
OBJECTIVE: Identifying disease-mutation relationships is a significant challenge in the advancement of precision medicine. The aim of this work is to design a tool that automates the extraction of disease-related mutations from biomedical text to adv...
Findings from information-seeking behavior research can inform application development. In this report we provide a system description of Spark, an application based on findings from Serendipitous Knowledge Discovery studies and data structures known...
Computational and mathematical methods in medicine
Oct 7, 2015
Informatics methods, such as text mining and natural language processing, are always involved in bioinformatics research. In this study, we discuss text mining and natural language processing methods in bioinformatics from two perspectives. First, we...
BACKGROUND: This article provides an overview of the first BIOASQ challenge, a competition on large-scale biomedical semantic indexing and question answering (QA), which took place between March and September 2013. BIOASQ assesses the ability of syst...
BACKGROUND: Controlled vocabularies such as the Unified Medical Language System (UMLS) and Medical Subject Headings (MeSH) are widely used for biomedical natural language processing (NLP) tasks. However, the standard terminology in such collections s...
BACKGROUND: In order to retrieve useful information from scientific literature and electronic medical records (EMR) we developed an ontology specific for Multiple Sclerosis (MS).
Database : the journal of biological databases and curation
Jan 25, 2015
The Rat Genome Database (RGD) is the premier repository of rat genomic, genetic and physiologic data. Converting data from free text in the scientific literature to a structured format is one of the main tasks of all model organism databases. RGD spe...
Computerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society
May 23, 2014
Modern medical information retrieval systems are paramount to manage the insurmountable quantities of clinical data. These systems empower health care experts in the diagnosis of patients and play an important role in the clinical decision process. H...
Journal of the American Medical Informatics Association : JAMIA
Mar 1, 2025
OBJECTIVE: This study evaluates the utility of word embeddings, generated by large language models (LLMs), for medical diagnosis by comparing the semantic proximity of symptoms to their eponymic disease embedding ("eponymic condition") and the mean o...
Journal of the American Medical Informatics Association : JAMIA
Nov 1, 2024
OBJECTIVES: To enhance and evaluate the quality of PubMed search results for Social Determinants of Health (SDoH) through the addition of new SDoH terms to Medical Subject Headings (MeSH).