AIMC Topic: Data Warehousing
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Ontology-driven identification of inconsistencies in clinical data: A case study in lung cancer phenotyping.
Journal of biomedical informatics
Mar 21, 2025
OBJECTIVE: To illustrate the use of an ontology in evaluating data quality in the medical field, focusing on phenotyping lung cancers.
Development and Validation of a Natural Language Processing Algorithm to Pseudonymize Documents in the Context of a Clinical Data Warehouse.
Methods of information in medicine
Mar 5, 2024
OBJECTIVE: The objective of this study is to address the critical issue of deidentification of clinical reports to allow access to data for research purposes, while ensuring patient privacy. The study highlights the difficulties faced in sharing tool...
Deep learning approach to detection of colonoscopic information from unstructured reports.
BMC medical informatics and decision making
Feb 7, 2023
BACKGROUND: Colorectal cancer is a leading cause of cancer deaths. Several screening tests, such as colonoscopy, can be used to find polyps or colorectal cancer. Colonoscopy reports are often written in unstructured narrative text. The information em...
FHIR-Ontop-OMOP: Building clinical knowledge graphs in FHIR RDF with the OMOP Common data Model.
Journal of biomedical informatics
Sep 9, 2022
BACKGROUND: Knowledge graphs (KGs) play a key role to enable explainable artificial intelligence (AI) applications in healthcare. Constructing clinical knowledge graphs (CKGs) against heterogeneous electronic health records (EHRs) has been desired by...
The Challenges of Implementing Comprehensive Clinical Data Warehouses in Hospitals.
International journal of environmental research and public health
Jun 16, 2022
Digital health, e-health, telemedicine-this abundance of terms illustrates the scientific and technical revolution at work, made possible by high-speed processing of health data, artificial intelligence (AI), and the profound upheavals currently taki...
Extracting Structured Genotype Information from Free-Text HLA Reports Using a Rule-Based Approach.
Journal of Korean medical science
Mar 30, 2020
BACKGROUND: Human leukocyte antigen (HLA) typing is important for transplant patients to prevent a severe mismatch reaction, and the result can also support the diagnosis of various disease or prediction of drug side effects. However, such secondary ...
Collaborative and privacy-enhancing workflows on a clinical data warehouse: an example developing natural language processing pipelines to detect medical conditions.
Journal of the American Medical Informatics Association : JAMIA
May 20, 2024
OBJECTIVE: To develop and validate a natural language processing (NLP) pipeline that detects 18 conditions in French clinical notes, including 16 comorbidities of the Charlson index, while exploring a collaborative and privacy-enhancing workflow.
Prescreening in Oncology Using Data Sciences: The PreScIOUS Study.
Studies in health technology and informatics
May 27, 2021
The development of precision medicine in oncology to define profiles of patients who could benefit from specific and relevant anti-cancer therapies is essential. An increasing number of specific eligibility criteria are necessary to be eligible to ta...
Provenance for Biomedical Ontologies with RDF and Git.
Studies in health technology and informatics
Sep 3, 2019
The German Center for Lung Research (DZL) is a research network with the aim of researching respiratory diseases. In order to enable consortium-wide retrospective research and prospective patient recruitment, we perform data integration into a centra...
Automated mapping of laboratory tests to LOINC codes using noisy labels in a national electronic health record system database.
Journal of the American Medical Informatics Association : JAMIA
Oct 1, 2018
OBJECTIVE: Standards such as the Logical Observation Identifiers Names and Codes (LOINC®) are critical for interoperability and integrating data into common data models, but are inconsistently used. Without consistent mapping to standards, clinical d...
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