Literature DB >> 29171014

The Influence of Big (Clinical) Data and Genomics on Precision Medicine and Drug Development.

Joshua C Denny1,2, Sara L Van Driest2,3, Wei-Qi Wei1, Dan M Roden1,2,4.   

Abstract

Drug development continues to be costly and slow, with medications failing due to lack of efficacy or presence of toxicity. The promise of pharmacogenomic discovery includes tailoring therapeutics based on an individual's genetic makeup, rational drug development, and repurposing medications. Rapid growth of large research cohorts, linked to electronic health record (EHR) data, fuels discovery of new genetic variants predicting drug action, supports Mendelian randomization experiments to show drug efficacy, and suggests new indications for existing medications. New biomedical informatics and machine-learning approaches advance the ability to interpret clinical information, enabling identification of complex phenotypes and subpopulations of patients. We review the recent history of use of "big data" from EHR-based cohorts and biobanks supporting these activities. Future studies using EHR data, other information sources, and new methods will promote a foundation for discovery to more rapidly advance precision medicine.
© 2017 American Society for Clinical Pharmacology and Therapeutics.

Entities:  

Mesh:

Year:  2018        PMID: 29171014      PMCID: PMC5805632          DOI: 10.1002/cpt.951

Source DB:  PubMed          Journal:  Clin Pharmacol Ther        ISSN: 0009-9236            Impact factor:   6.875


  90 in total

1.  Future of cholesteryl ester transfer protein (CETP) inhibitors: a pharmacological perspective.

Authors:  Amir Hooshang Mohammadpour; Fatemeh Akhlaghi
Journal:  Clin Pharmacokinet       Date:  2013-08       Impact factor: 6.447

Review 2.  Regulatory watch: From big data to smart data: FDA's INFORMED initiative.

Authors:  Sean Khozin; Geoffrey Kim; Richard Pazdur
Journal:  Nat Rev Drug Discov       Date:  2017-02-24       Impact factor: 84.694

3.  Cardiovascular and Metabolic Effects of ANGPTL3 Antisense Oligonucleotides.

Authors:  Mark J Graham; Richard G Lee; Teresa A Brandt; Li-Jung Tai; Wuxia Fu; Raechel Peralta; Rosie Yu; Eunju Hurh; Erika Paz; Bradley W McEvoy; Brenda F Baker; Nguyen C Pham; Andres Digenio; Steven G Hughes; Richard S Geary; Joseph L Witztum; Rosanne M Crooke; Sotirios Tsimikas
Journal:  N Engl J Med       Date:  2017-05-24       Impact factor: 91.245

4.  Naïve Electronic Health Record phenotype identification for Rheumatoid arthritis.

Authors:  Robert J Carroll; Anne E Eyler; Joshua C Denny
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

5.  Characterization of statin dose response in electronic medical records.

Authors:  W-Q Wei; Q Feng; L Jiang; M S Waitara; O F Iwuchukwu; D M Roden; M Jiang; H Xu; R M Krauss; J I Rotter; D A Nickerson; R L Davis; R L Berg; P L Peissig; C A McCarty; R A Wilke; J C Denny
Journal:  Clin Pharmacol Ther       Date:  2013-10-04       Impact factor: 6.875

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

Review 7.  The 1200 patients project: creating a new medical model system for clinical implementation of pharmacogenomics.

Authors:  P H O'Donnell; A Bush; J Spitz; K Danahey; D Saner; S Das; N J Cox; M J Ratain
Journal:  Clin Pharmacol Ther       Date:  2012-08-29       Impact factor: 6.875

8.  Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans.

Authors:  Sekar Kathiresan; Olle Melander; Candace Guiducci; Aarti Surti; Noël P Burtt; Mark J Rieder; Gregory M Cooper; Charlotta Roos; Benjamin F Voight; Aki S Havulinna; Björn Wahlstrand; Thomas Hedner; Dolores Corella; E Shyong Tai; Jose M Ordovas; Göran Berglund; Erkki Vartiainen; Pekka Jousilahti; Bo Hedblad; Marja-Riitta Taskinen; Christopher Newton-Cheh; Veikko Salomaa; Leena Peltonen; Leif Groop; David M Altshuler; Marju Orho-Melander
Journal:  Nat Genet       Date:  2008-01-13       Impact factor: 38.330

9.  Electronic Health Record Based Algorithm to Identify Patients with Autism Spectrum Disorder.

Authors:  Todd Lingren; Pei Chen; Joseph Bochenek; Finale Doshi-Velez; Patty Manning-Courtney; Julie Bickel; Leah Wildenger Welchons; Judy Reinhold; Nicole Bing; Yizhao Ni; William Barbaresi; Frank Mentch; Melissa Basford; Joshua Denny; Lyam Vazquez; Cassandra Perry; Bahram Namjou; Haijun Qiu; John Connolly; Debra Abrams; Ingrid A Holm; Beth A Cobb; Nataline Lingren; Imre Solti; Hakon Hakonarson; Isaac S Kohane; John Harley; Guergana Savova
Journal:  PLoS One       Date:  2016-07-29       Impact factor: 3.240

10.  Automatic prediction of rheumatoid arthritis disease activity from the electronic medical records.

Authors:  Chen Lin; Elizabeth W Karlson; Helena Canhao; Timothy A Miller; Dmitriy Dligach; Pei Jun Chen; Raul Natanael Guzman Perez; Yuanyan Shen; Michael E Weinblatt; Nancy A Shadick; Robert M Plenge; Guergana K Savova
Journal:  PLoS One       Date:  2013-08-16       Impact factor: 3.240

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  16 in total

Review 1.  Data integration strategies for predictive analytics in precision medicine.

Authors:  Lewis J Frey
Journal:  Per Med       Date:  2018-11-02       Impact factor: 2.512

2.  BETA: a comprehensive benchmark for computational drug-target prediction.

Authors:  Nansu Zong; Ning Li; Andrew Wen; Victoria Ngo; Yue Yu; Ming Huang; Shaika Chowdhury; Chao Jiang; Sunyang Fu; Richard Weinshilboum; Guoqian Jiang; Lawrence Hunter; Hongfang Liu
Journal:  Brief Bioinform       Date:  2022-07-18       Impact factor: 13.994

3.  The Built Environment Assessment of Residential Areas in Wuhan during the Coronavirus Disease (COVID-19) Outbreak.

Authors:  Heli Lu; Menglin Xia; Ziyuan Qin; Siqi Lu; Ruimin Guan; Yuna Yang; Changhong Miao; Taizheng Chen
Journal:  Int J Environ Res Public Health       Date:  2022-06-25       Impact factor: 4.614

Review 4.  Harnessing endophenotypes and network medicine for Alzheimer's drug repurposing.

Authors:  Jiansong Fang; Andrew A Pieper; Ruth Nussinov; Garam Lee; Lynn Bekris; James B Leverenz; Jeffrey Cummings; Feixiong Cheng
Journal:  Med Res Rev       Date:  2020-07-13       Impact factor: 12.944

5.  Multiple genetic factors affecting the pharmacokinetic and pharmacodynamic processes of tacrolimus in Chinese myasthenia gravis patients.

Authors:  Huan-Yu Meng; Xi Li; Wan-Lin Jin; Cheng-Kai Yan; Xiao-Hua Dong; Qiu Xu; Yu-Yao Peng; Zhi-Bin Li; Yi Li; Zhao-Hui Luo; Li-Qun Xu; Huan Yang
Journal:  Eur J Clin Pharmacol       Date:  2020-01-18       Impact factor: 2.953

6.  Enhancing diversity to reduce health information disparities and build an evidence base for genomic medicine.

Authors:  Lucia A Hindorff; Vence L Bonham; Lucila Ohno-Machado
Journal:  Per Med       Date:  2018-09-13       Impact factor: 2.512

7.  Use of big data in drug development for precision medicine: an update.

Authors:  Tongqi Qian; Shijia Zhu; Yujin Hoshida
Journal:  Expert Rev Precis Med Drug Dev       Date:  2019-05-20

Review 8.  Natural Products for Drug Discovery in the 21st Century: Innovations for Novel Drug Discovery.

Authors:  Nicholas Ekow Thomford; Dimakatso Alice Senthebane; Arielle Rowe; Daniella Munro; Palesa Seele; Alfred Maroyi; Kevin Dzobo
Journal:  Int J Mol Sci       Date:  2018-05-25       Impact factor: 5.923

9.  PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison.

Authors:  Pierre Monnin; Joël Legrand; Graziella Husson; Patrice Ringot; Andon Tchechmedjiev; Clément Jonquet; Amedeo Napoli; Adrien Coulet
Journal:  BMC Bioinformatics       Date:  2019-04-18       Impact factor: 3.169

10.  Predicting the need for a reduced drug dose, at first prescription.

Authors:  Adrien Coulet; Nigam H Shah; Maxime Wack; Mohammad B Chawki; Nicolas Jay; Michel Dumontier
Journal:  Sci Rep       Date:  2018-10-22       Impact factor: 4.379

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