Literature DB >> 25954398

Development and validation of an electronic phenotyping algorithm for chronic kidney disease.

Girish N Nadkarni1, Omri Gottesman1, James G Linneman2, Herbert Chase2, Richard L Berg2, Samira Farouk1, Rajiv Nadukuru1, Vaneet Lotay1, Steve Ellis1, George Hripcsak3, Peggy Peissig2, Chunhua Weng3, Erwin P Bottinger1.   

Abstract

Twenty-six million Americans are estimated to have chronic kidney disease (CKD) with increased risk for cardiovascular disease and end stage renal disease. CKD is frequently undiagnosed and patients are unaware, hampering intervention. A tool for accurate and timely identification of CKD from electronic medical records (EMR) could improve healthcare quality and identify patients for research. As members of eMERGE (electronic medical records and genomics) Network, we developed an automated phenotyping algorithm that can be deployed to identify rapidly diabetic and/or hypertensive CKD cases and controls in health systems with EMRs It uses diagnostic codes, laboratory results, medication and blood pressure records, and textual information culled from notes. Validation statistics demonstrated positive predictive values of 96% and negative predictive values of 93.3. Similar results were obtained on implementation by two independent eMERGE member institutions. The algorithm dramatically outperformed identification by ICD-9-CM codes with 63% positive and 54% negative predictive values, respectively.

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Year:  2014        PMID: 25954398      PMCID: PMC4419875     

Source DB:  PubMed          Journal:  AMIA Annu Symp Proc        ISSN: 1559-4076


  24 in total

1.  Association of estimated glomerular filtration rate and albuminuria with all-cause and cardiovascular mortality in general population cohorts: a collaborative meta-analysis.

Authors:  Kunihiro Matsushita; Marije van der Velde; Brad C Astor; Mark Woodward; Andrew S Levey; Paul E de Jong; Josef Coresh; Ron T Gansevoort
Journal:  Lancet       Date:  2010-05-17       Impact factor: 79.321

2.  Intensive blood-pressure control in hypertensive chronic kidney disease.

Authors:  Lawrence J Appel; Jackson T Wright; Tom Greene; Lawrence Y Agodoa; Brad C Astor; George L Bakris; William H Cleveland; Jeanne Charleston; Gabriel Contreras; Marquetta L Faulkner; Francis B Gabbai; Jennifer J Gassman; Lee A Hebert; Kenneth A Jamerson; Joel D Kopple; John W Kusek; James P Lash; Janice P Lea; Julia B Lewis; Michael S Lipkowitz; Shaul G Massry; Edgar R Miller; Keith Norris; Robert A Phillips; Velvie A Pogue; Otelio S Randall; Stephen G Rostand; Miroslaw J Smogorzewski; Robert D Toto; Xuelei Wang
Journal:  N Engl J Med       Date:  2010-09-02       Impact factor: 91.245

3.  Accuracy of ICD-9-CM codes for identifying cardiovascular and stroke risk factors.

Authors:  Elena Birman-Deych; Amy D Waterman; Yan Yan; David S Nilasena; Martha J Radford; Brian F Gage
Journal:  Med Care       Date:  2005-05       Impact factor: 2.983

4.  Informed consent and subject motivation to participate in a large, population-based genomics study: the Marshfield Clinic Personalized Medicine Research Project.

Authors:  Catherine A McCarty; Anuradha Nair; Diane M Austin; Philip F Giampietro
Journal:  Community Genet       Date:  2007

Review 5.  Conceptual model of CKD: applications and implications.

Authors:  Andrew S Levey; Lesley A Stevens; Josef Coresh
Journal:  Am J Kidney Dis       Date:  2009-03       Impact factor: 8.860

6.  PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations.

Authors:  Joshua C Denny; Marylyn D Ritchie; Melissa A Basford; Jill M Pulley; Lisa Bastarache; Kristin Brown-Gentry; Deede Wang; Dan R Masys; Dan M Roden; Dana C Crawford
Journal:  Bioinformatics       Date:  2010-03-24       Impact factor: 6.937

7.  Risk scores for predicting outcomes in patients with type 2 diabetes and nephropathy: the RENAAL study.

Authors:  William F Keane; Zhongxin Zhang; Paulette A Lyle; Mark E Cooper; Dick de Zeeuw; Jean-Pierre Grunfeld; James P Lash; Janet B McGill; William E Mitch; Giuseppe Remuzzi; Shahnaz Shahinfar; Steven M Snapinn; Robert Toto; Barry M Brenner
Journal:  Clin J Am Soc Nephrol       Date:  2006-05-17       Impact factor: 8.237

8.  A new equation to estimate glomerular filtration rate.

Authors:  Andrew S Levey; Lesley A Stevens; Christopher H Schmid; Yaping Lucy Zhang; Alejandro F Castro; Harold I Feldman; John W Kusek; Paul Eggers; Frederick Van Lente; Tom Greene; Josef Coresh
Journal:  Ann Intern Med       Date:  2009-05-05       Impact factor: 25.391

9.  Relationship between nephrologist care and progression of chronic kidney disease.

Authors:  Lori A Orlando; William F Owen; David B Matchar
Journal:  N C Med J       Date:  2007 Jan-Feb

10.  Longitudinal follow-up and outcomes among a population with chronic kidney disease in a large managed care organization.

Authors:  Douglas S Keith; Gregory A Nichols; Christina M Gullion; Jonathan Betz Brown; David H Smith
Journal:  Arch Intern Med       Date:  2004-03-22
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  26 in total

1.  PheValuator: Development and evaluation of a phenotype algorithm evaluator.

Authors:  Joel N Swerdel; George Hripcsak; Patrick B Ryan
Journal:  J Biomed Inform       Date:  2019-07-29       Impact factor: 6.317

2.  Careflow Mining Techniques to Explore Type 2 Diabetes Evolution.

Authors:  Arianna Dagliati; Valentina Tibollo; Giulia Cogni; Luca Chiovato; Riccardo Bellazzi; Lucia Sacchi
Journal:  J Diabetes Sci Technol       Date:  2018-03

3.  Association of APOL1 Risk Genotype and Air Pollution for Kidney Disease.

Authors:  Ishan Paranjpe; Kumardeep Chaudhary; Manish Paranjpe; Ross O'Hagan; Sayan Manna; Suraj Jaladanki; Arjun Kapoor; Carol Horowitz; Nicholas DeFelice; Richard Cooper; Benjamin Glicksberg; Erwin P Bottinger; Allan C Just; Girish N Nadkarni
Journal:  Clin J Am Soc Nephrol       Date:  2020-02-20       Impact factor: 8.237

4.  Development and Validation of a Pragmatic Electronic Phenotype for CKD.

Authors:  Jenna M Norton; Kaltun Ali; Claudine T Jurkovitz; Krzysztof Kiryluk; Meyeon Park; Kensaku Kawamoto; Ning Shang; Sankar D Navaneethan; Andrew S Narva; Paul Drawz
Journal:  Clin J Am Soc Nephrol       Date:  2019-08-12       Impact factor: 8.237

5.  Plasma biomarkers are associated with renal outcomes in individuals with APOL1 risk variants.

Authors:  Girish N Nadkarni; Kinsuk Chauhan; Divya A Verghese; Chirag R Parikh; Ron Do; Carol R Horowitz; Erwin P Bottinger; Steven G Coca
Journal:  Kidney Int       Date:  2018-04-25       Impact factor: 10.612

6.  KNOWLEDGE DRIVEN BINNING AND PHEWAS ANALYSIS IN MARSHFIELD PERSONALIZED MEDICINE RESEARCH PROJECT USING BIOBIN.

Authors:  Anna O Basile; John R Wallace; Peggy Peissig; Catherine A McCarty; Murray Brilliant; Marylyn D Ritchie
Journal:  Pac Symp Biocomput       Date:  2016

Review 7.  Big Data in Nephrology.

Authors:  Navchetan Kaur; Sanchita Bhattacharya; Atul J Butte
Journal:  Nat Rev Nephrol       Date:  2021-06-30       Impact factor: 28.314

8.  Natural language processing of electronic health records is superior to billing codes to identify symptom burden in hemodialysis patients.

Authors:  Lili Chan; Kelly Beers; Amy A Yau; Kinsuk Chauhan; Áine Duffy; Kumardeep Chaudhary; Neha Debnath; Aparna Saha; Pattharawin Pattharanitima; Judy Cho; Peter Kotanko; Alex Federman; Steven G Coca; Tielman Van Vleck; Girish N Nadkarni
Journal:  Kidney Int       Date:  2019-11-09       Impact factor: 10.612

9.  Derivation and validation of genome-wide polygenic score for urinary tract stone diagnosis.

Authors:  Ishan Paranjpe; Noah Tsao; Renae Judy; Manish Paranjpe; Kumardeep Chaudhary; Derek Klarin; Iain Forrest; Ross O'Hagan; Arjun Kapoor; John Pfail; Suraj Jaladanki; Fayzan Chaudhry; Akhil Vaid; Phan Q Duy; John Cijiang He; Benjamin S Glicksberg; Steven G Coca; Mantu Gupta; Ron Do; Scott M Damrauer; Girish N Nadkarni
Journal:  Kidney Int       Date:  2020-06-12       Impact factor: 10.612

10.  Plasma endostatin predicts kidney outcomes in patients with type 2 diabetes.

Authors:  Kinsuk Chauhan; Divya Anna Verghese; Veena Rao; Lili Chan; Chirag R Parikh; Steven G Coca; Girish N Nadkarni
Journal:  Kidney Int       Date:  2018-12-24       Impact factor: 10.612

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