ArticleJournal of the American Medical Informatics Association : JAMIA2013
Deriving comorbidities from medical records using natural language processing.
Article in Journal of the American Medical Informatics Association : JAMIA, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 2 of them syntheses that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
24 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Using Natural Language Processing to Measure and Improve Quality of Diabetes Care: A Systematic Review.Journal of diabetes science and technology · 2021Pooled it
- Natural language processing systems for capturing and standardizing unstructured clinical information: A systematic review.Journal of biomedical informatics · 2017Pooled it
- 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 · 2024Article
- Antibiotic-Specific Risk for Community-AcquiredAntimicrobial agents and chemotherapy · 2022Article
- A Prediction Model Incorporating Peripheral Eosinopenia as a Novel Risk Factor for Death After Hospitalization forGastro hep advances · 2022Article
- Natural language processing for the assessment of cardiovascular disease comorbidities: The cardio-Canary comorbidity project.Clinical cardiology · 2021Article
- CERC: an interactive content extraction, recognition, and construction tool for clinical and biomedical text.BMC medical informatics and decision making · 2020Article
- Minor Hematochezia Decreases Use of Venous Thromboembolism Prophylaxis in Patients with Inflammatory Bowel Disease.Inflammatory bowel diseases · 2020Article
- Natural language processing of lifestyle modification documentation.Health informatics journal · 2020Article
- Use of Natural Language Processing Algorithms to Identify Common Data Elements in Operative Notes for Total Hip Arthroplasty.The Journal of bone and joint surgery. American volume · 2019Article
- Automated SNOMED CT concept and attribute relationship detection through a web-based implementation of cTAKES.Journal of biomedical semantics · 2019Article
- Evaluation of Use of Technologies to Facilitate Medical Chart Review.Drug safety · 2019Article
- Identifying the risk factors for catheter-associated urinary tract infections: a large cross-sectional study of six hospitals.BMJ open · 2019Article
- The local hospital milieu and healthcare-associated vancomycin-resistant enterococcus acquisition.The Journal of hospital infection · 2019Article
- Defining Phenotypes from Clinical Data to Drive Genomic Research.Annual review of biomedical data science · 2018Article
- Surgical Antibiotic Prophylaxis and Risk for Postoperative Antibiotic-Resistant Infections.Journal of the American College of Surgeons · 2017Article
- Challenges in adapting existing clinical natural language processing systems to multiple, diverse health care settings.Journal of the American Medical Informatics Association : JAMIA · 2017Article
- Proton Pump Inhibitors Do Not Increase Risk for Clostridium difficile Infection in the Intensive Care Unit.The American journal of gastroenterology · 2016Article
- Natural Language Processing-Enabled and Conventional Data Capture Methods for Input to Electronic Health Records: A Comparative Usability Study.JMIR medical informatics · 2016Article
- Interpretable Topic Features for Post-ICU Mortality Prediction.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Extracting comorbidity information is crucial for phenotypic studies because of the confounding effect of comorbidities. We developed an automated method that accurately determines comorbidities from electronic medical records. Using a modified version of the Charlson comorbidity index (CCI), two physicians created a reference standard of comorbidities by manual review of 100 admission notes. We processed the notes using the MedLEE natural language processing system, and wrote queries to extract comorbidities automatically from its structured output. Interrater agreement for the reference set was very high (97.7%). Our method yielded an F1 score of 0.761 and the summed CCI score was not different from the reference standard (p=0.329, power 80.4%). In comparison, obtaining comorbidities from claims data yielded an F1 score of 0.741, due to lower sensitivity (66.1%). Because CCI has previously been validated as a predictor of mortality and readmission, our method could allow automated prediction of these outcomes.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.