Literature DB >> 26073373

Patient Electronic Health Records as a Means to Approach Genetic Research in Gastroenterology.

Ashwin N Ananthakrishnan1, David Lieberman2.   

Abstract

Electronic health records (EHRs) are being increasingly utilized and form a unique source of extensive data gathered during routine clinical care. Through use of codified and free text concepts identified using clinical informatics tools, disease labels can be assigned with a high degree of accuracy. Analysis linking such EHR-assigned disease labels to a biospecimen repository has demonstrated that genetic associations identified in prospective cohorts can be replicated with adequate statistical power and novel phenotypic associations identified. In addition, genetic discovery research can be performed utilizing clinical, laboratory, and procedure data obtained during care. Challenges with such research include the need to tackle variability in quality and quantity of EHR data and importance of maintaining patient privacy and data security. With appropriate safeguards, this novel and emerging field of research offers considerable promise and potential to further scientific research in gastroenterology efficiently, cost-effectively, and with engagement of patients and communities.
Copyright © 2015 AGA Institute. Published by Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Electronic Health Records; Genetics; Informatics; Natural Language Processing

Mesh:

Year:  2015        PMID: 26073373      PMCID: PMC4589451          DOI: 10.1053/j.gastro.2015.06.005

Source DB:  PubMed          Journal:  Gastroenterology        ISSN: 0016-5085            Impact factor:   22.682


  17 in total

1.  Improving case definition of Crohn's disease and ulcerative colitis in electronic medical records using natural language processing: a novel informatics approach.

Authors:  Ashwin N Ananthakrishnan; Tianxi Cai; Guergana Savova; Su-Chun Cheng; Pei Chen; Raul Guzman Perez; Vivian S Gainer; Shawn N Murphy; Peter Szolovits; Zongqi Xia; Stanley Shaw; Susanne Churchill; Elizabeth W Karlson; Isaac Kohane; Robert M Plenge; Katherine P Liao
Journal:  Inflamm Bowel Dis       Date:  2013-06       Impact factor: 5.325

2.  Portability of an algorithm to identify rheumatoid arthritis in electronic health records.

Authors:  Robert J Carroll; Will K Thompson; Anne E Eyler; Arthur M Mandelin; Tianxi Cai; Raquel M Zink; Jennifer A Pacheco; Chad S Boomershine; Thomas A Lasko; Hua Xu; Elizabeth W Karlson; Raul G Perez; Vivian S Gainer; Shawn N Murphy; Eric M Ruderman; Richard M Pope; Robert M Plenge; Abel Ngo Kho; Katherine P Liao; Joshua C Denny
Journal:  J Am Med Inform Assoc       Date:  2012-02-28       Impact factor: 4.497

3.  Genetic basis of autoantibody positive and negative rheumatoid arthritis risk in a multi-ethnic cohort derived from electronic health records.

Authors:  Fina Kurreeman; Katherine Liao; Lori Chibnik; Brendan Hickey; Eli Stahl; Vivian Gainer; Gang Li; Lynn Bry; Scott Mahan; Kristin Ardlie; Brian Thomson; Peter Szolovits; Susanne Churchill; Shawn N Murphy; Tianxi Cai; Soumya Raychaudhuri; Isaac Kohane; Elizabeth Karlson; Robert M Plenge
Journal:  Am J Hum Genet       Date:  2011-01-07       Impact factor: 11.025

4.  Mortality and extraintestinal cancers in patients with primary sclerosing cholangitis and inflammatory bowel disease.

Authors:  Ashwin N Ananthakrishnan; Andrew Cagan; Vivian S Gainer; Su-Chun Cheng; Tianxi Cai; Peter Szolovits; Stanley Y Shaw; Susanne Churchill; Elizabeth W Karlson; Shawn N Murphy; Isaac Kohane; Katherine P Liao
Journal:  J Crohns Colitis       Date:  2014-02-19       Impact factor: 9.071

5.  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

6.  Common Genetic Variants Influence Circulating Vitamin D Levels in Inflammatory Bowel Diseases.

Authors:  Ashwin N Ananthakrishnan; Andrew Cagan; Tianxi Cai; Vivian S Gainer; Stanley Y Shaw; Susanne Churchill; Elizabeth W Karlson; Shawn N Murphy; Isaac Kohane; Katherine P Liao; Ramnik J Xavier
Journal:  Inflamm Bowel Dis       Date:  2015-11       Impact factor: 5.325

7.  Automated identification of surveillance colonoscopy in inflammatory bowel disease using natural language processing.

Authors:  Jason K Hou; Mimi Chang; Thien Nguyen; Jennifer R Kramer; Peter Richardson; Shubhada Sansgiry; Leonard W D'Avolio; Hashem B El-Serag
Journal:  Dig Dis Sci       Date:  2012-10-21       Impact factor: 3.199

8.  Screening patients with a family history of colorectal cancer.

Authors:  Robert H Fletcher; Rebecca Lobb; Mark R Bauer; James Alan Kemp; Richard C Palmer; Ken P Kleinman; Irina Miroshnik; Karen M Emmons
Journal:  J Gen Intern Med       Date:  2007-04       Impact factor: 5.128

9.  Genome- and phenome-wide analyses of cardiac conduction identifies markers of arrhythmia risk.

Authors:  Marylyn D Ritchie; Joshua C Denny; Rebecca L Zuvich; Dana C Crawford; Jonathan S Schildcrout; Lisa Bastarache; Andrea H Ramirez; Jonathan D Mosley; Jill M Pulley; Melissa A Basford; Yuki Bradford; Luke V Rasmussen; Jyotishman Pathak; Christopher G Chute; Iftikhar J Kullo; Catherine A McCarty; Rex L Chisholm; Abel N Kho; Christopher S Carlson; Eric B Larson; Gail P Jarvik; Nona Sotoodehnia; Teri A Manolio; Rongling Li; Daniel R Masys; Jonathan L Haines; Dan M Roden
Journal:  Circulation       Date:  2013-03-05       Impact factor: 29.690

10.  Modeling disease severity in multiple sclerosis using electronic health records.

Authors:  Zongqi Xia; Elizabeth Secor; Lori B Chibnik; Riley M Bove; Suchun Cheng; Tanuja Chitnis; Andrew Cagan; Vivian S Gainer; Pei J Chen; Katherine P Liao; Stanley Y Shaw; Ashwin N Ananthakrishnan; Peter Szolovits; Howard L Weiner; Elizabeth W Karlson; Shawn N Murphy; Guergana K Savova; Tianxi Cai; Susanne E Churchill; Robert M Plenge; Isaac S Kohane; Philip L De Jager
Journal:  PLoS One       Date:  2013-11-11       Impact factor: 3.240

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  2 in total

Review 1.  Genetics, Genetic Testing, and Biomarkers of Digestive Diseases.

Authors:  John M Carethers; Jonathan Braun; Bruce E Sands
Journal:  Gastroenterology       Date:  2015-08-29       Impact factor: 22.682

2.  Big Dreams With Big Data! Use of Clinical Informatics to Inform Biomarker Discovery.

Authors:  Siddharth Singh
Journal:  Clin Transl Gastroenterol       Date:  2019-03       Impact factor: 4.488

  2 in total

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