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Joshua Denny

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Physiology

Chemicals & Drugs

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Publications

TOP 3
Matthew T Oetjens; Jill Pulley; Nicole A Restrepo; Danielle M Richardson; Marylyn Ritchie; Dan M Roden; Russell A Wilke; Joshua C Denny; Holli H Dilks; Niloufar B Gillani; Daniel R Masys; Melissa A Basford; Erica Bowton; Dana C Crawford
Assessment of a pharmacogenomic marker panel in a polypharmacy population identified from electronic medical records.
Matthew J Westbrook; M Frances Wright; Rebecca L Zuvich; Ellen Wright Clayton; Joshua C Denny; Tracy L McGregor; Sara L Van Driest; Kyle B Brothers
Mapping the incidentalome: estimating incidental findings generated through clinical pharmacogenomics testing.
Marylyn D Ritchie; Jonathan S Schildcrout; Nona Sotoodehnia; Rebecca L Zuvich; Melissa A Basford; Lisa Bastarache; Yuki Bradford; Christopher S Carlson; Rex L Chisholm; Christopher G Chute; Dana C Crawford; Joshua C Denny; Jonathan L Haines; Gail P Jarvik; Abel N Kho; Iftikhar J Kullo; Eric B Larson; Rongling Li; Teri A Manolio; Daniel R Masys; Catherine A McCarty; Jonathan D Mosley; Jyotishman Pathak; Jill Pulley; Andrea H Ramirez; Luke V Rasmussen; Dan M Roden
Genome- and phenome-wide analyses of cardiac conduction identifies markers of arrhythmia risk.

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All Publications

2013: Matthew T Oetjens; Jill Pulley; Nicole A Restrepo; Danielle M Richardson; Marylyn Ritchie; Dan M Roden; Russell A Wilke; Joshua C Denny; Holli H Dilks; Niloufar B Gillani; Daniel R Masys; Melissa A Basford; Erica Bowton; Dana C Crawford
Assessment of a pharmacogenomic marker panel in a polypharmacy population identified from electronic medical records.
Pharmacogenomics 2013;14(7):735-44.
2013: Matthew J Westbrook; M Frances Wright; Rebecca L Zuvich; Ellen Wright Clayton; Joshua C Denny; Tracy L McGregor; Sara L Van Driest; Kyle B Brothers
Mapping the incidentalome: estimating incidental findings generated through clinical pharmacogenomics testing.
Genetics in medicine : official journal of the American College of Medical Genetics 2013;15(5):325-31.
2013: Marylyn D Ritchie; Jonathan S Schildcrout; Nona Sotoodehnia; Rebecca L Zuvich; Melissa A Basford; Lisa Bastarache; Yuki Bradford; Christopher S Carlson; Rex L Chisholm; Christopher G Chute; Dana C Crawford; Joshua C Denny; Jonathan L Haines; Gail P Jarvik; Abel N Kho; Iftikhar J Kullo; Eric B Larson; Rongling Li; Teri A Manolio; Daniel R Masys; Catherine A McCarty; Jonathan D Mosley; Jyotishman Pathak; Jill Pulley; Andrea H Ramirez; Luke V Rasmussen; Dan M Roden
Genome- and phenome-wide analyses of cardiac conduction identifies markers of arrhythmia risk.
Circulation 2013;127(13):1377-85.
2013: Cecelia N Theobald; Eduard E Vasilevskis; Nancy J Brown; Neesha N Choma; Jennifer K Green; Jacob Hathaway; Sunil Kripalani; Neeraja B Peterson; John Sergent; Kelly C Sponsler; Daniel G Stover; Joshua C Denny
The effect of reducing maximum shift lengths to 16 hours on internal medicine interns' educational opportunities.
Academic medicine : journal of the Association of American Medical Colleges 2013;88(4):512-8.
2013: Joshua C Denny; Jill Pulley; Jonathan S Schildcrout; Dan Mark Roden
Response to "Doubt about the feasibility of preemptive genotyping".
Clinical pharmacology and therapeutics 2013;93(3):234.
2013: Ruth M Reeves; Theodore Speroff; Dominik Aronsky; Joshua C Denny; Glenn T Gobbel; Michael E Matheny; Diane Montella; Ferdo R Ong; Steven H Brown
Detecting temporal expressions in medical narratives.
International journal of medical informatics 2013;82(2):118-27.
2013: Raymond D Heatherly; Grigorios Loukides; Joshua C Denny; Jonathan L Haines; Dan M Roden; Bradley Malin
Enabling genomic-phenomic association discovery without sacrificing anonymity.
PloS one 2013;8(2):e53875.
2012: Laura J Rasmussen-Torvik; Marylyn D Ritchie; Dan M Roden; Douglas A Scheftner; William K Thompson; Russell A Wilke; John T Wilkins; Rebecca L Zuvich; Dana C Crawford; David R Crosslin; Joshua C Denny; M Geoff Hayes; Gail P Jarvik; Abel N Kho; Iftikhar J Kullo; Rongling Li; Teri A Manolio; Catherine A McCarty; Arun Muthalagu; Jennifer A Pacheco; Loren L Armstrong; Suzette J Bielinski; Christopher S Carlson; Rex L Chisholm
High density GWAS for LDL cholesterol in African Americans using electronic medical records reveals a strong protective variant in APOE.
Clinical and translational science 2012;5(5):394-9.
2012: Jonathan S Schildcrout; R A Wilke; H Xu; M A Basford; E Bowton; J D Cowan; Dana C Crawford; Joshua C Denny; William Gregg; Daniel R Masys; Josh F Peterson; Jill Pulley; A H Ramirez; Marylyn Ritchie; Dan Mark Roden
Optimizing drug outcomes through pharmacogenetics: a case for preemptive genotyping.
Clinical pharmacology and therapeutics 2012;92(2):235-42.
2012: Jill Pulley; A H Ramirez; Jonathan S Schildcrout; E Shultz; C L Vnencak-Jones; R A Wilke; gordon bernard; E Bowton; K Brothers; E W Clayton; Dana C Crawford; J T Delaney; Joshua C Denny; H H Dilks; J N Jirjis; K Johnson; M Laposata; Daniel R Masys; J McPherson; Josh F Peterson; D M Roden
Operational implementation of prospective genotyping for personalized medicine: the design of the Vanderbilt PREDICT project.
Clinical pharmacology and therapeutics 2012;92(1):87-95.
2012: Dan Mark Roden; Joshua C Denny; H Xu; R A Wilke
Electronic medical records as a tool in clinical pharmacology: opportunities and challenges.
Clinical pharmacology and therapeutics 2012;91(6):1083-86.
2012: Shane P Stenner; Kevin B Johnson; Joshua C Denny
PASTE: patient-centered SMS text tagging in a medication management system.
Journal of the American Medical Informatics Association : JAMIA 2012;19(3):368-74.
2012: Stephanie M Fullerton; Philip Greenland; Kyle B Brothers; Wylie Burke; Ellen Wright Clayton; Dana C Crawford; Joshua C Denny; Barbara A Koenig; Kathleen A Leppig; Noralane M Lindor; Catherine A McCarty; Amy L McGuire; Eugenia R McPeek Hinz; Daniel B Mirel; Erin M Ramos; Marylyn D Ritchie; Maureen E Smith; Carol J Waudby; Wendy A Wolf; Gail P Jarvik
Return of individual research results from genome-wide association studies: experience of the Electronic Medical Records and Genomics (eMERGE) Network.
Genetics in medicine : official journal of the American College of Medical Genetics 2012;14(4):424-31.
2012: Andrea H Ramirez; Marylyn Ritchie; Dan M Roden; Jonathan S Schildcrout; Yaping Shi; Peter Speltz; Hua Xu; Raquel Zink; Rebecca L Zuvich; Melissa A Basford; Erica Bowton; James Cowan; Dana C Crawford; Jessica T Delaney; Min Jiang; Daniel R Masys; Matthew T Oetjens; Jill Pulley; Joshua C Denny
Predicting warfarin dosage in European-Americans and African-Americans using DNA samples linked to an electronic health record.
Pharmacogenomics 2012;13(4):407-18.
2012: Peggy L Peissig; Luke V Rasmussen; Carol Waudby; Russell A Wilke; Richard L Berg; David Carrell; Lin Chen; Joshua C Denny; Abel N Kho; James G Linneman; Catherine A McCarty; Jyotishman Pathak; Justin Starren
Importance of multi-modal approaches to effectively identify cataract cases from electronic health records.
Journal of the American Medical Informatics Association : JAMIA 2012;19(2):225-34.
2012: Abel N Kho; Cynthia L Leibson; Loren L Armstrong; Suzette J Bielinski; Christopher S Carlson; Rex L Chisholm; Christopher G Chute; David R Crosslin; Joshua C Denny; M Geoffrey Hayes; Gail P Jarvik; Aaron W Miller; Katherine M Newton; Jennifer A Pacheco; Peggy L Peissig; Laura Rasmussen-Torvik; William K Thompson; Wei-Qi Wei; Wendy A Wolf; William L Lowe
Use of diverse electronic medical record systems to identify genetic risk for type 2 diabetes within a genome-wide association study.
Journal of the American Medical Informatics Association : JAMIA 2012;19(2):212-8.
2012: J T Delaney; M A Basford; E Bowton; J H Cleator; Dana C Crawford; E Jahangir; Daniel R Masys; M Oetjens; Jill Pulley; A H Ramirez; Marylyn Ritchie; Dan Mark Roden; Jonathan S Schildcrout; Y Shi; H Xu; R Zink; Joshua C Denny
Predicting clopidogrel response using DNA samples linked to an electronic health record.
Clinical pharmacology and therapeutics 2012;91(2):257-63.
2012: William K Thompson; Peggy L Peissig; Luke V Rasmussen; Joshua C Denny; Abel N Kho; Aaron Miller; Jennifer A Pacheco; Jyotishman Pathak
An evaluation of the NQF Quality Data Model for representing Electronic Health Record driven phenotyping algorithms.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2012;2012():911-20.
2012: Joshua C Denny; Ming Li; Randolph A Miller; Josh F Peterson; Lisa Bastarache; Neesha N Choma; Neeraja B Peterson
Natural language processing improves identification of colorectal cancer testing in the electronic medical record.
Medical decision making : an international journal of the Society for Medical Decision Making 2012;32(1):188-97.
2011: Hua Xu; Yanxin Lu; Samir AbdelRahman; Joshua C Denny; Son Doan
Applying semantic-based probabilistic context-free grammar to medical language processing--a preliminary study on parsing medication sentences.
Journal of biomedical informatics 2011;44(6):1068-75.
2011: Jonathan S Schildcrout; Lemuel R Waitman; Josh F Peterson; Joshua C Denny; Sebastien Haneuse; Michael E Matheny; Randolph A Miller
Analyses of longitudinal, hospital clinical laboratory data with application to blood glucose concentrations.
Statistics in medicine 2011;30(27):3208-20.
2011: Min Jiang; Mei Liu; Subramani Mani; S Trent Rosenbloom; Yukun Chen; Joshua C Denny; Hua Xu
A study of machine-learning-based approaches to extract clinical entities and their assertions from discharge summaries.
Journal of the American Medical Informatics Association : JAMIA 2011;18(5):601-6.
2011: Hua Xu; Melissa A Basford; Erica A Bowton; James D Cowan; Dana C Crawford; Janina M Jeff; Min Jiang; Daniel R Masys; Matt Oetjens; Jill Pulley; Andrea H Ramirez; Marylyn Ritchie; Dan Mark Roden; Xiaoming Wang; Joshua C Denny
Facilitating pharmacogenetic studies using electronic health records and natural-language processing: a case study of warfarin.
Journal of the American Medical Informatics Association : JAMIA 2011;18(4):387-91.
2011: R A Wilke; H Xu; Joshua C Denny; Dan Mark Roden; R M Krauss; C A McCarty; R L Davis; Todd C Skaar; J Lamba; G Savova
The emerging role of electronic medical records in pharmacogenomics.
Clinical pharmacology and therapeutics 2011;89(3):379-86.
2011: S Trent Rosenbloom; Joshua C Denny; Hua Xu; Nancy M Lorenzi; William W Stead; Kevin B Johnson
Data from clinical notes: a perspective on the tension between structure and flexible documentation.
Journal of the American Medical Informatics Association : JAMIA 2011;18(2):181-6.
2011: Andrea H Ramirez; Jonathan S Schildcrout; Dana L Blakemore; Daniel R Masys; Jill Pulley; Melissa A Basford; Dan Mark Roden; Joshua C Denny
Modulators of normal electrocardiographic intervals identified in a large electronic medical record.
Heart rhythm : the official journal of the Heart Rhythm Society 2011;8(2):271-7.
2011: Elizabeth Ann Sastre; Joshua C Denny; Jacob A McCoy; Allison Beck McCoy; Anderson Spickard
Teaching evidence-based medicine: Impact on students' literature use and inpatient clinical documentation.
Medical teacher 2011;33(6):e306-12.
2011: Stephen D Turner; Richard L Berg; James G Linneman; Peggy L Peissig; Dana C Crawford; Joshua C Denny; Dan Mark Roden; Catherine A McCarty; Marylyn Ritchie; Russell A Wilke
Knowledge-driven multi-locus analysis reveals gene-gene interactions influencing HDL cholesterol level in two independent EMR-linked biobanks.
PloS one 2011;6(5):e19586.
2010: Jonathan S Schildcrout; Melissa A Basford; Jill Pulley; Daniel R Masys; Dan Mark Roden; Deede Wang; Christopher G Chute; Iftikhar J Kullo; David Carrell; Peggy Peissig; Abel Kho; Joshua C Denny
An analytical approach to characterize morbidity profile dissimilarity between distinct cohorts using electronic medical records.
Journal of biomedical informatics 2010;43(6):914-23.
2010: Joshua C Denny; Marylyn Ritchie; Dana C Crawford; Jonathan S Schildcrout; Andrea H Ramirez; Jill Pulley; Melissa A Basford; Daniel R Masys; Jonathan L Haines; Dan Mark Roden
Identification of genomic predictors of atrioventricular conduction: using electronic medical records as a tool for genome science.
Circulation 2010;122(20):2016-21.
2010: Michael E Matheny; Randolph A Miller; T Alp Ikizler; Lemuel R Waitman; Joshua C Denny; Jonathan S Schildcrout; Robert S Dittus; Josh F Peterson
Development of inpatient risk stratification models of acute kidney injury for use in electronic health records.
Medical decision making : an international journal of the Society for Medical Decision Making 2010;30(6):639-50.
2010: Logan Dumitrescu; Marylyn Ritchie; Kristin Brown-Gentry; Jill Pulley; Melissa Basford; Joshua C Denny; Jorge R Oksenberg; Dan Mark Roden; Jonathan L Haines; Dana C Crawford
Assessing the accuracy of observer-reported ancestry in a biorepository linked to electronic medical records.
Genetics in medicine : official journal of the American College of Medical Genetics 2010;12(10):648-50.
2010: Son Doan; Lisa Bastarache; Sergio Klimkowski; Joshua C Denny; Hua Xu
Integrating existing natural language processing tools for medication extraction from discharge summaries.
Journal of the American Medical Informatics Association : JAMIA 2010;17(5):528-31.
2010: Joshua C Denny; Josh F Peterson; Neesha N Choma; Hua Xu; Randolph A Miller; Lisa Bastarache; Neeraja B Peterson
Extracting timing and status descriptors for colonoscopy testing from electronic medical records.
Journal of the American Medical Informatics Association : JAMIA 2010;17(4):383-8.
2010: Grigorios Loukides; Joshua C Denny; Bradley Malin
The disclosure of diagnosis codes can breach research participants' privacy.
Journal of the American Medical Informatics Association : JAMIA 2010;17(3):322-7.
2010: Joshua C Denny; Marylyn Ritchie; Melissa A Basford; Jill Pulley; Lisa Bastarache; Kristin Brown-Gentry; Deede Wang; Daniel R Masys; Dan Mark Roden; Dana C Crawford
PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations.
Bioinformatics (Oxford, England) 2010;26(9):1205-10.
2010: Acar Tamersoy; Grigorios Loukides; Joshua C Denny; Bradley Malin
Anonymization of administrative billing codes with repeated diagnoses through censoring.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2010;2010():782-6.
2010: Josh F Peterson; Yaping Shi; Joshua C Denny; Michael E Matheny; Jonathan S Schildcrout; Lemuel R Waitman; Randolph A Miller
Prevalence and Clinical Significance of Discrepancies within Three Computerized Pre-Admission Medication Lists.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2010;2010():642-6.
2010: Joshua C Denny; Peter Speltz; Raquel Maddox; Glenn Stein; Hua Xu; Anderson Spickard
Comparing content coverage in medical curriculum to trainee-authored clinical notes.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2010;2010():157-61.
2010: Hua Xu; Shane P Stenner; Son Doan; Kevin B Johnson; Lemuel R Waitman; Joshua C Denny
MedEx: a medication information extraction system for clinical narratives.
Journal of the American Medical Informatics Association : JAMIA 2010;17(1):19-24.
2009: Joshua C Denny; Anderson Spickard; Kevin B Johnson; Neeraja B Peterson; Josh F Peterson; Randolph A Miller
Evaluation of a method to identify and categorize section headers in clinical documents.
Journal of the American Medical Informatics Association : JAMIA 2009;16(6):806-15.
2009: Joshua C Denny; Lisa Bastarache; Elizabeth Ann Sastre; Anderson Spickard
Tracking medical students' clinical experiences using natural language processing.
Journal of biomedical informatics 2009;42(5):781-9.
2009: Joshua C Denny; Randolph A Miller; Lemuel Russell Waitman; Mark A Arrieta; Josh F Peterson
Identifying QT prolongation from ECG impressions using a general-purpose Natural Language Processor.
International journal of medical informatics 2009;78 Suppl 1():S34-42.
2009: Joshua C Denny; Josh F Peterson; Neesha N Choma; Hua Xu; Randolph A Miller; Lisa Bastarache; Neeraja B Peterson
Development of a natural language processing system to identify timing and status of colonoscopy testing in electronic medical records.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2009;2009():141.
2008: Anderson Spickard; Joseph Gigante; Glenn Stein; Joshua C Denny
Automatic capture of student notes to augment mentor feedback and student performance on patient write-ups.
Journal of general internal medicine 2008;23(7):979-84.
2008: Joshua C Denny; Frederick V Arndt; William D Dupont; Eric G Neilson
Increased hospital mortality in patients with bedside hippus.
The American journal of medicine 2008;121(3):239-45.
2008: Joshua C Denny; Randolph A Miller; Kevin B Johnson; Anderson Spickard
Development and evaluation of a clinical note section header terminology.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2008;():156-60.
2008: Joshua C Denny; Anderson Spickard
Automated capture and assessment of medical student clinical experience.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2008;():926.
2007: Anderson Spickard; Joshua C Denny; Joseph Gigante
A randomized study of feedback on student write-ups using an electronic portfolio.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2007;():1120.
2007: Joshua C Denny; James Powers; Anderson Spickard; Randolph Miller
A comparison of three methods for automatic text categorization for geriatrics.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2007;():931.
2007: Joshua C Denny; Josh F Peterson
Identifying QT prolongation from ECG impressions using natural language processing and negation detection.
Studies in health technology and informatics 2007;129(Pt 2):1283-8.
2006: Benjamin P Rosenbaum; Joshua C Denny; Anderson Spickard
Analysis of medical student content searches that resulted in unidentified UMLS concepts.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2006;():1079.
2005: Joshua C Denny; Jeffrey D Smithers; Brian Armstrong; Anderson Spickard
"Where do we teach what?" Finding broad concepts in the medical school curriculum.
Journal of general internal medicine 2005;20(10):943-6.
2005: Firas H Wehbe; Joshua C Denny; Anderson Spickard
Can users estimate their usage of a web-based application? Validating a self-report usage questionnaire.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2005;():1151.
2005: Joshua C Denny; Anderson Spickard; Randolph A Miller; Jonathan S Schildcrout; Dawood Darbar; S Trent Rosenbloom; Josh F Peterson
Identifying UMLS concepts from ECG Impressions using KnowledgeMap.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2005;():196-200.
2004: Raul C Camacho; Joshua C Denny; R Richard Pencek; Yoshiharu Koyama; D Brooks Lacy; Freyja D James; David H Wasserman
Portal venous hyperinsulinemia does not stimulate gut glucose absorption in the conscious dog.
Metabolism: clinical and experimental 2004;53(10):1290-5.
2003: Joshua C Denny; Jeffrey D Smithers; Randolph A Miller; Anderson Spickard
"Understanding" medical school curriculum content using KnowledgeMap.
Journal of the American Medical Informatics Association : JAMIA 2003;10(4):351-62.
2003: Firas H Wehbe; Brian K Armstrong; Matthew R Peachey; Joshua C Denny; Anderson Spickard
Formative evaluation to guide early deployment of an online content management tool for medical curriculum.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2003;():1049.
2003: Joshua C Denny; Plomarz R Irani; Firas H Wehbe; Jeffrey D Smithers; Anderson Spickard
The KnowledgeMap project: development of a concept-based medical school curriculum database.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2003;():195-9.
2002: Robert H Coker; Yoshiharu Koyama; Joshua C Denny; Raul C Camacho; D Brooks Lacy; David H Wasserman
Prevention of overt hypoglycemia during exercise: stimulation of endogenous glucose production independent of hepatic catecholamine action and changes in pancreatic hormone concentration.
Diabetes 2002;51(5):1310-8.
2001: Yoshiharu Koyama; Robert H Coker; Joshua C Denny; D Brooks Lacy; Kareem Jabbour; Phillip E Williams; David H Wasserman
Role of carotid bodies in control of the neuroendocrine response to exercise.
American journal of physiology. Endocrinology and metabolism 2001;281(4):E742-8.