Literature DB >> 25521360

Genomic architecture of pharmacological efficacy and adverse events.

Aparna Chhibber1, Deanna L Kroetz, Kelan G Tantisira, Michael McGeachie, Cheng Cheng, Robert Plenge, Eli Stahl, Wolfgang Sadee, Marylyn D Ritchie, Sarah A Pendergrass.   

Abstract

The pharmacokinetic and pharmacodynamic disciplines address pharmacological traits, including efficacy and adverse events. Pharmacogenomics studies have identified pervasive genetic effects on treatment outcomes, resulting in the development of genetic biomarkers for optimization of drug therapy. Pharmacogenomics-based tests are already being applied in clinical decision making. However, despite substantial progress in identifying the genetic etiology of pharmacological response, current biomarker panels still largely rely on single gene tests with a large portion of the genetic effects remaining to be discovered. Future research must account for the combined effects of multiple genetic variants, incorporate pathway-based approaches, explore gene-gene interactions and nonprotein coding functional genetic variants, extend studies across ancestral populations, and prioritize laboratory characterization of molecular mechanisms. Because genetic factors can play a key role in drug response, accurate biomarker tests capturing the main genetic factors determining treatment outcomes have substantial potential for improving individual clinical care.

Entities:  

Keywords:  genetic architecture; genomics; heritability; linear mixed modeling; pharmacogenomics; polygenic architecture; polygenic modeling

Mesh:

Year:  2014        PMID: 25521360      PMCID: PMC4308414          DOI: 10.2217/pgs.14.144

Source DB:  PubMed          Journal:  Pharmacogenomics        ISSN: 1462-2416            Impact factor:   2.533


  130 in total

1.  Potential etiologic and functional implications of genome-wide association loci for human diseases and traits.

Authors:  Lucia A Hindorff; Praveen Sethupathy; Heather A Junkins; Erin M Ramos; Jayashri P Mehta; Francis S Collins; Teri A Manolio
Journal:  Proc Natl Acad Sci U S A       Date:  2009-05-27       Impact factor: 11.205

2.  Personal genomes: The case of the missing heritability.

Authors:  Brendan Maher
Journal:  Nature       Date:  2008-11-06       Impact factor: 49.962

3.  Plasma and renal clearance of iohexol--a study on the reproducibility of a method for the glomerular filtration rate.

Authors:  A Arvidsson; A Hedman
Journal:  Scand J Clin Lab Invest       Date:  1990-11       Impact factor: 1.713

4.  Fcgamma receptor type IIIA polymorphisms influence treatment outcomes in patients with inflammatory arthritis treated with tumor necrosis factor alpha-blocking agents.

Authors:  Zuhre Tutuncu; Arthur Kavanaugh; Nathan Zvaifler; Maripat Corr; Reena Deutsch; David Boyle
Journal:  Arthritis Rheum       Date:  2005-09

5.  Common risk allele in aromatic antiepileptic-drug induced Stevens-Johnson syndrome and toxic epidermal necrolysis in Han Chinese.

Authors:  Shuen-Iu Hung; Wen-Hung Chung; Zhi-Sheng Liu; Chien-Hsiun Chen; Mo-Song Hsih; Rosaline Chung-yee Hui; Chia-Yu Chu; Yuan-Tsong Chen
Journal:  Pharmacogenomics       Date:  2010-03       Impact factor: 2.533

6.  A pharmacogenetic versus a clinical algorithm for warfarin dosing.

Authors:  Stephen E Kimmel; Benjamin French; Scott E Kasner; Julie A Johnson; Jeffrey L Anderson; Brian F Gage; Yves D Rosenberg; Charles S Eby; Rosemary A Madigan; Robert B McBane; Sherif Z Abdel-Rahman; Scott M Stevens; Steven Yale; Emile R Mohler; Margaret C Fang; Vinay Shah; Richard B Horenstein; Nita A Limdi; James A S Muldowney; Jaspal Gujral; Patrice Delafontaine; Robert J Desnick; Thomas L Ortel; Henny H Billett; Robert C Pendleton; Nancy L Geller; Jonathan L Halperin; Samuel Z Goldhaber; Michael D Caldwell; Robert M Califf; Jonas H Ellenberg
Journal:  N Engl J Med       Date:  2013-11-19       Impact factor: 91.245

7.  ATHENA: a tool for meta-dimensional analysis applied to genotypes and gene expression data to predict HDL cholesterol levels.

Authors:  Emily R Holzinger; Scott M Dudek; Alex T Frase; Ronald M Krauss; Marisa W Medina; Marylyn D Ritchie
Journal:  Pac Symp Biocomput       Date:  2013

8.  A genome-wide association study identifies novel loci for paclitaxel-induced sensory peripheral neuropathy in CALGB 40101.

Authors:  R Michael Baldwin; Kouros Owzar; Hitoshi Zembutsu; Aparna Chhibber; Michiaki Kubo; Chen Jiang; Dorothy Watson; Rachel J Eclov; Joel Mefford; Howard L McLeod; Paula N Friedman; Clifford A Hudis; Eric P Winer; Eric M Jorgenson; John S Witte; Lawrence N Shulman; Yusuke Nakamura; Mark J Ratain; Deanna L Kroetz
Journal:  Clin Cancer Res       Date:  2012-07-27       Impact factor: 12.531

9.  Measuring the overall genetic component of nevirapine pharmacokinetics and the role of selected polymorphisms: towards addressing the missing heritability in pharmacogenetic phenotypes?

Authors:  Janine E Micheli; Leslie W Chinn; Sarah B Shugarts; Ashish Patel; Jeffrey N Martin; David R Bangsberg; Deanna L Kroetz
Journal:  Pharmacogenet Genomics       Date:  2013-11       Impact factor: 2.089

10.  A user's guide to the encyclopedia of DNA elements (ENCODE).

Authors: 
Journal:  PLoS Biol       Date:  2011-04-19       Impact factor: 8.029

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  10 in total

Review 1.  The genetics of drug efficacy: opportunities and challenges.

Authors:  Matthew R Nelson; Toby Johnson; Liling Warren; Arlene R Hughes; Stephanie L Chissoe; Chun-Fang Xu; Dawn M Waterworth
Journal:  Nat Rev Genet       Date:  2016-03-14       Impact factor: 53.242

Review 2.  Personalized medicine: Genetic risk prediction of drug response.

Authors:  Ge Zhang; Daniel W Nebert
Journal:  Pharmacol Ther       Date:  2017-02-14       Impact factor: 12.310

Review 3.  Uncovering drug-responsive regulatory elements.

Authors:  Marcelo R Luizon; Nadav Ahituv
Journal:  Pharmacogenomics       Date:  2015-11-10       Impact factor: 2.533

Review 4.  Lessons Learned From Past Gene-Environment Interaction Successes.

Authors:  Beate R Ritz; Nilanjan Chatterjee; Montserrat Garcia-Closas; W James Gauderman; Brandon L Pierce; Peter Kraft; Caroline M Tanner; Leah E Mechanic; Kimberly McAllister
Journal:  Am J Epidemiol       Date:  2017-10-01       Impact factor: 5.363

5.  Pharmacogenomic variants have larger effect sizes than genetic variants associated with other dichotomous complex traits.

Authors:  J C Maranville; N J Cox
Journal:  Pharmacogenomics J       Date:  2015-07-07       Impact factor: 3.550

6.  Genetic variation among 82 pharmacogenes: The PGRNseq data from the eMERGE network.

Authors:  W S Bush; D R Crosslin; A Owusu-Obeng; J Wallace; B Almoguera; M A Basford; S J Bielinski; D S Carrell; J J Connolly; D Crawford; K F Doheny; C J Gallego; A S Gordon; B Keating; J Kirby; T Kitchner; S Manzi; A R Mejia; V Pan; C L Perry; J F Peterson; C A Prows; J Ralston; S A Scott; A Scrol; M Smith; S C Stallings; T Veldhuizen; W Wolf; S Volpi; K Wiley; R Li; T Manolio; E Bottinger; M H Brilliant; D Carey; R L Chisholm; C G Chute; J L Haines; H Hakonarson; J B Harley; I A Holm; I J Kullo; G P Jarvik; E B Larson; C A McCarty; M S Williams; J C Denny; L J Rasmussen-Torvik; D M Roden; M D Ritchie
Journal:  Clin Pharmacol Ther       Date:  2016-06-01       Impact factor: 6.875

Review 7.  Open Humans: A platform for participant-centered research and personal data exploration.

Authors:  Bastian Greshake Tzovaras; Misha Angrist; Kevin Arvai; Mairi Dulaney; Vero Estrada-Galiñanes; Beau Gunderson; Tim Head; Dana Lewis; Oded Nov; Orit Shaer; Athina Tzovara; Jason Bobe; Mad Price Ball
Journal:  Gigascience       Date:  2019-06-01       Impact factor: 6.524

8.  A New Liver Expression Quantitative Trait Locus Map From 1,183 Individuals Provides Evidence for Novel Expression Quantitative Trait Loci of Drug Response, Metabolic, and Sex-Biased Phenotypes.

Authors:  Amy S Etheridge; Paul J Gallins; Dereje Jima; K Alaine Broadaway; Mark J Ratain; Erin Schuetz; Eric Schadt; Adrian Schroder; Cliona Molony; Yihui Zhou; Karen L Mohlke; Fred A Wright; Federico Innocenti
Journal:  Clin Pharmacol Ther       Date:  2020-01-30       Impact factor: 6.875

9.  Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis.

Authors:  Solveig K Sieberts; Fan Zhu; Javier García-García; Eli Stahl; Abhishek Pratap; Gaurav Pandey; Dimitrios Pappas; Daniel Aguilar; Bernat Anton; Jaume Bonet; Ridvan Eksi; Oriol Fornés; Emre Guney; Hongdong Li; Manuel Alejandro Marín; Bharat Panwar; Joan Planas-Iglesias; Daniel Poglayen; Jing Cui; Andre O Falcao; Christine Suver; Bruce Hoff; Venkat S K Balagurusamy; Donna Dillenberger; Elias Chaibub Neto; Thea Norman; Tero Aittokallio; Muhammad Ammad-Ud-Din; Chloe-Agathe Azencott; Víctor Bellón; Valentina Boeva; Kerstin Bunte; Himanshu Chheda; Lu Cheng; Jukka Corander; Michel Dumontier; Anna Goldenberg; Peddinti Gopalacharyulu; Mohsen Hajiloo; Daniel Hidru; Alok Jaiswal; Samuel Kaski; Beyrem Khalfaoui; Suleiman Ali Khan; Eric R Kramer; Pekka Marttinen; Aziz M Mezlini; Bhuvan Molparia; Matti Pirinen; Janna Saarela; Matthias Samwald; Véronique Stoven; Hao Tang; Jing Tang; Ali Torkamani; Jean-Phillipe Vert; Bo Wang; Tao Wang; Krister Wennerberg; Nathan E Wineinger; Guanghua Xiao; Yang Xie; Rae Yeung; Xiaowei Zhan; Cheng Zhao; Jeff Greenberg; Joel Kremer; Kaleb Michaud; Anne Barton; Marieke Coenen; Xavier Mariette; Corinne Miceli; Nancy Shadick; Michael Weinblatt; Niek de Vries; Paul P Tak; Danielle Gerlag; Tom W J Huizinga; Fina Kurreeman; Cornelia F Allaart; S Louis Bridges; Lindsey Criswell; Larry Moreland; Lars Klareskog; Saedis Saevarsdottir; Leonid Padyukov; Peter K Gregersen; Stephen Friend; Robert Plenge; Gustavo Stolovitzky; Baldo Oliva; Yuanfang Guan; Lara M Mangravite
Journal:  Nat Commun       Date:  2016-08-23       Impact factor: 14.919

10.  Pharmacogenomics of Hypertension and Preeclampsia: Focus on Gene-Gene Interactions.

Authors:  Marcelo R Luizon; Daniela A Pereira; Valeria C Sandrim
Journal:  Front Pharmacol       Date:  2018-02-28       Impact factor: 5.810

  10 in total

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