Literature DB >> 23701381

Implications of genome-wide association studies in cancer therapeutics.

Jai N Patel1, Howard L McLeod, Federico Innocenti.   

Abstract

Genome wide association studies (GWAS) provide an agnostic approach to identifying potential genetic variants associated with disease susceptibility, prognosis of survival and/or predictive of drug response. Although these techniques are costly and interpretation of study results is challenging, they do allow for a more unbiased interrogation of the entire genome, resulting in the discovery of novel genes and understanding of novel biological associations. This review will focus on the implications of GWAS in cancer therapy, in particular germ-line mutations, including findings from major GWAS which have identified predictive genetic loci for clinical outcome and/or toxicity. Lessons and challenges in cancer GWAS are also discussed, including the need for functional analysis and replication, as well as future perspectives for biological and clinical utility. Given the large heterogeneity in response to cancer therapeutics, novel methods of identifying mechanisms and biology of variable drug response and ultimately treatment individualization will be indispensable.
© 2013 The British Pharmacological Society.

Entities:  

Keywords:  association; cancer; genome-wide; polymorphism; replication; therapeutics

Mesh:

Substances:

Year:  2013        PMID: 23701381      PMCID: PMC3769665          DOI: 10.1111/bcp.12166

Source DB:  PubMed          Journal:  Br J Clin Pharmacol        ISSN: 0306-5251            Impact factor:   4.335


  45 in total

Review 1.  The pursuit of genome-wide association studies: where are we now?

Authors:  Chee Seng Ku; En Yun Loy; Yudi Pawitan; Kee Seng Chia
Journal:  J Hum Genet       Date:  2010-03-19       Impact factor: 3.172

2.  Genome-wide association studies: past, present and future.

Authors:  Mark I McCarthy; Joel N Hirschhorn
Journal:  Hum Mol Genet       Date:  2008-10-15       Impact factor: 6.150

3.  Genome-wide association scan of tag SNPs identifies a susceptibility locus for lung cancer at 15q25.1.

Authors:  Christopher I Amos; Xifeng Wu; Peter Broderick; Ivan P Gorlov; Jian Gu; Timothy Eisen; Qiong Dong; Qing Zhang; Xiangjun Gu; Jayaram Vijayakrishnan; Kate Sullivan; Athena Matakidou; Yufei Wang; Gordon Mills; Kimberly Doheny; Ya-Yu Tsai; Wei Vivien Chen; Sanjay Shete; Margaret R Spitz; Richard S Houlston
Journal:  Nat Genet       Date:  2008-04-02       Impact factor: 38.330

4.  Genome-wide association study of prognosis in advanced non-small cell lung cancer patients receiving platinum-based chemotherapy.

Authors:  Lingmin Hu; Chen Wu; Xueying Zhao; Rebecca Heist; Li Su; Yang Zhao; Baohui Han; Songyu Cao; Minjie Chu; Juncheng Dai; Jing Dong; Yongqian Shu; Lin Xu; Yijiang Chen; Yi Wang; Feng Lu; Yue Jiang; Dianke Yu; Hongyan Chen; Wen Tan; Hongxia Ma; Jiaping Chen; Guangfu Jin; Tangchun Wu; Daru Lu; David C Christiani; Dongxin Lin; Zhibin Hu; Hongbing Shen
Journal:  Clin Cancer Res       Date:  2012-08-07       Impact factor: 12.531

Review 5.  Sequencing technologies - the next generation.

Authors:  Michael L Metzker
Journal:  Nat Rev Genet       Date:  2009-12-08       Impact factor: 53.242

Review 6.  The epigenomics of cancer.

Authors:  Peter A Jones; Stephen B Baylin
Journal:  Cell       Date:  2007-02-23       Impact factor: 41.582

7.  Genetic variation predicting cisplatin cytotoxicity associated with overall survival in lung cancer patients receiving platinum-based chemotherapy.

Authors:  Xiang-Lin Tan; Ann M Moyer; Brooke L Fridley; Daniel J Schaid; Nifang Niu; Anthony J Batzler; Gregory D Jenkins; Ryan P Abo; Liang Li; Julie M Cunningham; Zhifu Sun; Ping Yang; Liewei Wang
Journal:  Clin Cancer Res       Date:  2011-07-20       Impact factor: 12.531

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.  A second generation human haplotype map of over 3.1 million SNPs.

Authors:  Kelly A Frazer; Dennis G Ballinger; David R Cox; David A Hinds; Laura L Stuve; Richard A Gibbs; John W Belmont; Andrew Boudreau; Paul Hardenbol; Suzanne M Leal; Shiran Pasternak; David A Wheeler; Thomas D Willis; Fuli Yu; Huanming Yang; Changqing Zeng; Yang Gao; Haoran Hu; Weitao Hu; Chaohua Li; Wei Lin; Siqi Liu; Hao Pan; Xiaoli Tang; Jian Wang; Wei Wang; Jun Yu; Bo Zhang; Qingrun Zhang; Hongbin Zhao; Hui Zhao; Jun Zhou; Stacey B Gabriel; Rachel Barry; Brendan Blumenstiel; Amy Camargo; Matthew Defelice; Maura Faggart; Mary Goyette; Supriya Gupta; Jamie Moore; Huy Nguyen; Robert C Onofrio; Melissa Parkin; Jessica Roy; Erich Stahl; Ellen Winchester; Liuda Ziaugra; David Altshuler; Yan Shen; Zhijian Yao; Wei Huang; Xun Chu; Yungang He; Li Jin; Yangfan Liu; Yayun Shen; Weiwei Sun; Haifeng Wang; Yi Wang; Ying Wang; Xiaoyan Xiong; Liang Xu; Mary M Y Waye; Stephen K W Tsui; Hong Xue; J Tze-Fei Wong; Luana M Galver; Jian-Bing Fan; Kevin Gunderson; Sarah S Murray; Arnold R Oliphant; Mark S Chee; Alexandre Montpetit; Fanny Chagnon; Vincent Ferretti; Martin Leboeuf; Jean-François Olivier; Michael S Phillips; Stéphanie Roumy; Clémentine Sallée; Andrei Verner; Thomas J Hudson; Pui-Yan Kwok; Dongmei Cai; Daniel C Koboldt; Raymond D Miller; Ludmila Pawlikowska; Patricia Taillon-Miller; Ming Xiao; Lap-Chee Tsui; William Mak; You Qiang Song; Paul K H Tam; Yusuke Nakamura; Takahisa Kawaguchi; Takuya Kitamoto; Takashi Morizono; Atsushi Nagashima; Yozo Ohnishi; Akihiro Sekine; Toshihiro Tanaka; Tatsuhiko Tsunoda; Panos Deloukas; Christine P Bird; Marcos Delgado; Emmanouil T Dermitzakis; Rhian Gwilliam; Sarah Hunt; Jonathan Morrison; Don Powell; Barbara E Stranger; Pamela Whittaker; David R Bentley; Mark J Daly; Paul I W de Bakker; Jeff Barrett; Yves R Chretien; Julian Maller; Steve McCarroll; Nick Patterson; Itsik Pe'er; Alkes Price; Shaun Purcell; Daniel J Richter; Pardis Sabeti; Richa Saxena; Stephen F Schaffner; Pak C Sham; Patrick Varilly; David Altshuler; Lincoln D Stein; Lalitha Krishnan; Albert Vernon Smith; Marcela K Tello-Ruiz; Gudmundur A Thorisson; Aravinda Chakravarti; Peter E Chen; David J Cutler; Carl S Kashuk; Shin Lin; Gonçalo R Abecasis; Weihua Guan; Yun Li; Heather M Munro; Zhaohui Steve Qin; Daryl J Thomas; Gilean McVean; Adam Auton; Leonardo Bottolo; Niall Cardin; Susana Eyheramendy; Colin Freeman; Jonathan Marchini; Simon Myers; Chris Spencer; Matthew Stephens; Peter Donnelly; Lon R Cardon; Geraldine Clarke; David M Evans; Andrew P Morris; Bruce S Weir; Tatsuhiko Tsunoda; James C Mullikin; Stephen T Sherry; Michael Feolo; Andrew Skol; Houcan Zhang; Changqing Zeng; Hui Zhao; Ichiro Matsuda; Yoshimitsu Fukushima; Darryl R Macer; Eiko Suda; Charles N Rotimi; Clement A Adebamowo; Ike Ajayi; Toyin Aniagwu; Patricia A Marshall; Chibuzor Nkwodimmah; Charmaine D M Royal; Mark F Leppert; Missy Dixon; Andy Peiffer; Renzong Qiu; Alastair Kent; Kazuto Kato; Norio Niikawa; Isaac F Adewole; Bartha M Knoppers; Morris W Foster; Ellen Wright Clayton; Jessica Watkin; Richard A Gibbs; John W Belmont; Donna Muzny; Lynne Nazareth; Erica Sodergren; George M Weinstock; David A Wheeler; Imtaz Yakub; Stacey B Gabriel; Robert C Onofrio; Daniel J Richter; Liuda Ziaugra; Bruce W Birren; Mark J Daly; David Altshuler; Richard K Wilson; Lucinda L Fulton; Jane Rogers; John Burton; Nigel P Carter; Christopher M Clee; Mark Griffiths; Matthew C Jones; Kirsten McLay; Robert W Plumb; Mark T Ross; Sarah K Sims; David L Willey; Zhu Chen; Hua Han; Le Kang; Martin Godbout; John C Wallenburg; Paul L'Archevêque; Guy Bellemare; Koji Saeki; Hongguang Wang; Daochang An; Hongbo Fu; Qing Li; Zhen Wang; Renwu Wang; Arthur L Holden; Lisa D Brooks; Jean E McEwen; Mark S Guyer; Vivian Ota Wang; Jane L Peterson; Michael Shi; Jack Spiegel; Lawrence M Sung; Lynn F Zacharia; Francis S Collins; Karen Kennedy; Ruth Jamieson; John Stewart
Journal:  Nature       Date:  2007-10-18       Impact factor: 49.962

10.  Designing genome-wide association studies: sample size, power, imputation, and the choice of genotyping chip.

Authors:  Chris C A Spencer; Zhan Su; Peter Donnelly; Jonathan Marchini
Journal:  PLoS Genet       Date:  2009-05-15       Impact factor: 5.917

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  8 in total

1.  Cancer therapeutics revisited; novel drugs targeting cell signalling pathways, genome wide association studies and other trials and tribulations.

Authors:  Lionel D Lewis
Journal:  Br J Clin Pharmacol       Date:  2013-09       Impact factor: 4.335

Review 2.  European Medicines Agency initiatives and perspectives on pharmacogenomics.

Authors:  Falk Ehmann; Laura Caneva; Marisa Papaluca
Journal:  Br J Clin Pharmacol       Date:  2014-04       Impact factor: 4.335

3.  Personalised medicine, disease prevention, and the inverse care law: more harm than benefit?

Authors:  Jack E James
Journal:  Eur J Epidemiol       Date:  2014-04-12       Impact factor: 8.082

4.  LightSNiP assay is a good strategy for pharmacogenetics test.

Authors:  Stefania Cheli; Filippo Pietrantonio; Emilio Clementi; Felicia S Falvella
Journal:  Front Pharmacol       Date:  2015-06-02       Impact factor: 5.810

5.  Association between GWAS-identified genetic variations and disease prognosis for patients with colorectal cancer.

Authors:  Byung Woog Kang; Hyo-Sung Jeon; Yee Soo Chae; Soo Jung Lee; Jae Yong Park; Jin Eun Choi; Jun Seok Park; Gyu Seog Choi; Jong Gwang Kim
Journal:  PLoS One       Date:  2015-03-23       Impact factor: 3.240

Review 6.  Bringing a genomic perspective to the safety of drug treatment in oncology.

Authors:  Federico Innocenti
Journal:  F1000Res       Date:  2017-03-29

Review 7.  A systematic review and meta-analysis of somatic and germline DNA sequence biomarkers of esophageal cancer survival, therapy response and stage.

Authors:  J M Findlay; M R Middleton; I Tomlinson
Journal:  Ann Oncol       Date:  2014-09-11       Impact factor: 32.976

8.  The vitamin D receptor gene as a determinant of survival in pancreatic cancer patients: Genomic analysis and experimental validation.

Authors:  Federico Innocenti; Kouros Owzar; Chen Jiang; Amy S Etheridge; Raluca Gordân; Alexander B Sibley; Flora Mulkey; Donna Niedzwiecki; Dylan Glubb; Nicole Neel; Mark S Talamonti; David J Bentrem; Eric Seiser; Jen Jen Yeh; Katherine Van Loon; Howard McLeod; Mark J Ratain; Hedy L Kindler; Alan P Venook; Yusuke Nakamura; Michiaki Kubo; Gloria M Petersen; William R Bamlet; Robert R McWilliams
Journal:  PLoS One       Date:  2018-08-14       Impact factor: 3.240

  8 in total

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