Combining billing codes, clinical notes, and medications from electronic health records provides superior phenotyping performance

Journal of the American Medical Informatics Association : JAMIA
Wei-Qi WeiJoshua C Denny

Abstract

To evaluate the phenotyping performance of three major electronic health record (EHR) components: International Classification of Disease (ICD) diagnosis codes, primary notes, and specific medications. We conducted the evaluation using de-identified Vanderbilt EHR data. We preselected ten diseases: atrial fibrillation, Alzheimer's disease, breast cancer, gout, human immunodeficiency virus infection, multiple sclerosis, Parkinson's disease, rheumatoid arthritis, and types 1 and 2 diabetes mellitus. For each disease, patients were classified into seven categories based on the presence of evidence in diagnosis codes, primary notes, and specific medications. Twenty-five patients per disease category (a total number of 175 patients for each disease, 1750 patients for all ten diseases) were randomly selected for manual chart review. Review results were used to estimate the positive predictive value (PPV), sensitivity, andF-score for each EHR component alone and in combination. The PPVs of single components were inconsistent and inadequate for accurately phenotyping (0.06-0.71). Using two or more ICD codes improved the average PPV to 0.84. We observed a more stable and higher accuracy when using at least two components (mean ± standar...Continue Reading

References

Nov 24, 1998·Journal of the American Medical Informatics Association : JAMIA·H J TangeA Hasman
May 9, 2001·Neurology·M PippengerB G Vickrey
Sep 24, 2005·Health Services Research·Kimberly J O'MalleyCarol M Ashton
Apr 6, 2006·Health Services Research·Elizabeth F O KernLeonard Pogach
May 27, 2008·Clinical Pharmacology and Therapeutics·D M RodenD R Masys
Nov 26, 2008·International Journal of Data Mining and Bioinformatics·Bill AndreopoulosMichael Schroeder
Sep 1, 2009·Journal of the American Medical Informatics Association : JAMIA·Joshua C DennyRandolph A Miller
Jan 13, 2010·Journal of the American Medical Informatics Association : JAMIA·Hua XuJoshua C Denny
Jan 22, 2010·The New England Journal of Medicine·Steven Shea, George Hripcsak
Aug 25, 2010·Genetics in Medicine : Official Journal of the American College of Medical Genetics·Logan DumitrescuDana C Crawford
Dec 15, 2010·Archives of Internal Medicine·Fabienne C BourgeoisKenneth D Mandl
Jan 15, 2011·Journal of the American Medical Informatics Association : JAMIA·S Trent RosenbloomKevin B Johnson
Jan 21, 2011·Clinical Pharmacology and Therapeutics·R A WilkeG Savova
Apr 5, 2011·Journal of Biomedical Informatics·Brian E ChapmanWendy W Chapman
Apr 22, 2011·Science Translational Medicine·Abel N KhoJoshua C Denny
Nov 22, 2011·Journal of the American Medical Informatics Association : JAMIA·Abel N KhoWilliam L Lowe
Mar 1, 2012·Journal of the American Medical Informatics Association : JAMIA·Robert J CarrollJoshua C Denny
Apr 17, 2012·Human Mutation·Peter N Robinson
Apr 27, 2012·Clinical Pharmacology and Therapeutics·D M RodenR A Wilke
Sep 8, 2012·Journal of the American Medical Informatics Association : JAMIA·George Hripcsak, David J Albers
Nov 6, 2012·Pharmacoepidemiology and Drug Safety·David S GoldbergVincent Lo Re
Mar 28, 2013·Journal of the American Medical Informatics Association : JAMIA·Katherine M NewtonJoshua C Denny
Aug 2, 2013·Journal of the American Medical Informatics Association : JAMIA·Terrence Y TianDaren R Anderson
Oct 8, 2013·Clinical Pharmacology and Therapeutics·W-Q WeiJ C Denny
Nov 10, 2013·Journal of the American Medical Informatics Association : JAMIA·Chaitanya ShivadeAlbert M Lai
Jan 25, 2014·Clinical Journal of the American Society of Nephrology : CJASN·Morgan E GramsJosef Coresh
Feb 26, 2014·AIDS Research and Human Retroviruses·Matthew Bidwell GoetzMaria Rodriguez-Barradas
Aug 16, 2014·Yearbook of Medical Informatics·R L RichessonS A Rusincovitch

❮ Previous
Next ❯

Citations

Jun 9, 2016·Journal of the American Medical Informatics Association : JAMIA·Lewis J FreyJoshua C Denny
Jul 29, 2016·Social Psychiatry and Psychiatric Epidemiology·Robert Stewart, Katrina Davis
Aug 9, 2016·Journal of the American Medical Informatics Association : JAMIA·Pedro L TeixeiraJoshua C Denny
Mar 10, 2018·Current Cardiology Reports·Aeron M SmallScott M Damrauer
Dec 17, 2015·Clinical Pharmacology and Therapeutics·D M Roden, J C Denny
Sep 24, 2019·Journal of the American Medical Informatics Association : JAMIA·Guan N GuoSiaw-Teng Liaw
Aug 17, 2019·The American Journal of Psychiatry·Amanda B ZheutlinJordan W Smoller
Apr 6, 2018·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Tim WilkinsonUNKNOWN UK Biobank Neurodegenerative Outcomes Group and Dementias Platform UK
Nov 27, 2019·Journal of the American Medical Informatics Association : JAMIA·Alon GevaKenneth D Mandl
Oct 5, 2019·NPJ Digital Medicine·Alison CallahanNigam H Shah
Jun 2, 2020·Annals of Internal Medicine·Alison CallahanJonathan H Chen
Jun 17, 2020·JCO Clinical Cancer Informatics·Franck Diaz-GarelliUmit Topaloglu
Dec 18, 2018·Current Epidemiology Reports·Jenna WongSengwee Toh
Apr 20, 2018·BMC Bioinformatics·Huaixiao TouBo Zhang
May 9, 2019·JMIR Medical Informatics·Seyedmostafa SheikhalishahiVenet Osmani
May 6, 2016·Annual Review of Genomics and Human Genetics·Joshua C DennyDan M Roden
Jun 21, 2019·Annual Review of Biomedical Data Science·Juan M BandaNigam H Shah
Sep 26, 2020·Journal of the American Medical Informatics Association : JAMIA·Neil S ZhengWei-Qi Wei
Sep 4, 2020·Human Molecular Genetics·Hillary R DueñasLaura M Huckins
Jan 7, 2021·Applied Clinical Informatics·Amy JosephLee A Pyles
Sep 29, 2019·World Neurosurgery·Mohamad BydonLola B Chambless
Feb 26, 2021·Pharmacoepidemiology and Drug Safety·Kazuya FujiharaHirohito Sone
Mar 14, 2018·Journal of Biomedical Informatics·Jejo D KoolaMichael E Matheny
Apr 22, 2021·Applied Clinical Informatics·Melissa BeaucheminRebecca Schnall

❮ Previous
Next ❯

Related Concepts

Related Feeds

Atrial Fibrillation

Atrial fibrillation is a common arrhythmia that is associated with substantial morbidity and mortality, particularly due to stroke and thromboembolism. Here is the latest research.

Atrial Filbrillation

Atrial fibrillation refers to the abnormal heart rhythm characterized by rapid and irregular beating of the atria. Here is the latest research.

Arrhythmia

Arrhythmias are abnormalities in heart rhythms, which can be either too fast or too slow. They can result from abnormalities of the initiation of an impulse or impulse conduction or a combination of both. Here is the latest research on arrhythmias.