AIMC Topic: PubMed
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Text mining for precision medicine: automating disease-mutation relationship extraction from biomedical literature.
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...
Spark, an application based on Serendipitous Knowledge Discovery.
Journal of biomedical informatics
Dec 28, 2015
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...
Survey of Natural Language Processing Techniques in Bioinformatics.
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...
An overview of the BIOASQ large-scale biomedical semantic indexing and question answering competition.
BMC bioinformatics
Apr 30, 2015
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...
Identifying named entities from PubMed for enriching semantic categories.
BMC bioinformatics
Feb 21, 2015
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...
Knowledge retrieval from PubMed abstracts and electronic medical records with the Multiple Sclerosis Ontology.
PloS one
Feb 9, 2015
BACKGROUND: In order to retrieve useful information from scientific literature and electronic medical records (EMR) we developed an ontology specific for Multiple Sclerosis (MS).
OntoMate: a text-mining tool aiding curation at the Rat Genome Database.
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...
Multimodal medical information retrieval with unsupervised rank fusion.
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...
Algorithms
User-Computer Interface
Artificial Intelligence
Pattern Recognition, Automated
Terminology as Topic
Documentation
Radiology Information Systems
Information Storage and Retrieval
Medical Subject Headings
Multimodal Imaging
Vocabulary, Controlled
Natural Language Processing
Subtraction Technique
PubMed
LitSense 2.0: AI-powered biomedical information retrieval with sentence and passage level knowledge discovery.
Nucleic acids research
Jul 7, 2025
LitSense 2.0 (https://www.ncbi.nlm.nih.gov/research/litsense2/) is an advanced biomedical search system enhanced with dense vector semantic retrieval, designed for accessing literature on sentence and paragraph levels. It provides unified access to 3...
Enhancing search strategies for systematic reviews on drug Harms: An evaluation of the utility of ChatGPT in error detection and keyword generation.
Computers in biology and medicine
Jul 1, 2025
OBJECTIVE: Developing search strategies for synthesizing evidence on drug harms requires specialized expertise and knowledge. The aim of this study was to evaluate ChatGPT's ability to enhance search strategies for systematic reviews of drug harms by...
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