Advanced search
Publication Cover
Pharmacogenomics Volume 15, 2014 - Issue 2
Submit an article Journal homepage
281
Views
3
CrossRef citations to date
0
Altmetric
Research Article

Genome-Wide Association and Pharmacological Profiling of 29 Anticancer Agents Using Lymphoblastoid Cell Lines

Chad C Brown1 Bioinformatics Research Center, Department of Statistics, North Carolina State University, Raleigh, NC27607, USAView further author information
,
Tammy M Havener2 Institute for Pharmacogenomics & Individualized Therapy, University of North Carolina at Chapel Hill, Chapel Hill, NC27599, USAView further author information
,
Marisa W Medina3 Children‘s Hospital Oakland Research Institute, Oakland, CA94609, USAView further author information
,
John R Jack1 Bioinformatics Research Center, Department of Statistics, North Carolina State University, Raleigh, NC27607, USAView further author information
,
Ronald M Krauss3 Children‘s Hospital Oakland Research Institute, Oakland, CA94609, USAView further author information
,
Howard L McLeod2 Institute for Pharmacogenomics & Individualized Therapy, University of North Carolina at Chapel Hill, Chapel Hill, NC27599, USAView further author information
&
Alison A Motsinger-Reif2 Institute for Pharmacogenomics & Individualized Therapy, University of North Carolina at Chapel Hill, Chapel Hill, NC27599, USA;1 Bioinformatics Research Center, Department of Statistics, North Carolina State University, Raleigh, NC27607, USACorrespondence[email protected]
View further author information
 show all
Pages 137-146 | Received 13 Aug 2013, Accepted 16 Oct 2013, Published online: 21 Jan 2014

References

  • Ritchie MD . The success of pharmacogenomics in moving genetic association studies from bench to bedside: study design and implementation of precision medicine in the post-GWAS era. Hum. Genet.131(10) , 1615–1626 (2012).
  • Welsh M , MangraviteL, MedinaMW et al. Pharmacogenomic discovery using cell-based models. Pharmacol. Rev. 61(4) , 413–429 (2009).
  • Choy E , YelenskyR, BonakdarS et al. Genetic analysis of human traits in vitro: drug response and gene expression in lymphoblastoid cell lines. PLoS Genet. 4(11) , e1000287 (2008).
  • Stark AL , ZhangW, MiS et al. Heritable and non-genetic factors as variables of pharmacologic phenotypes in lymphoblastoid cell lines. Pharmacogenomics J. 10(6) , 505–512 (2010).
  • Wheeler HE , DolanME. Lymphoblastoid cell lines in pharmacogenomic discovery and clinical translation. Pharmacogenomics13(1) , 55–70 (2012).
  • Huang RS , DuanS, KistnerEO, HartfordCM, DolanME. Genetic variants associated with carboplatin-induced cytotoxicity in cell lines derived from Africans. Mol. Cancer Ther.7(9) , 3038–3046 (2008).
  • Tan XL , MoyerAM, FridleyBL et al. Genetic variation predicting cisplatin cytotoxicity associated with overall survival in lung cancer patients receiving platinum-based chemotherapy. Clin. Cancer Res. 17(17) , 5801–5811 (2011).
  • Duan S , BleibelWK, HuangRS et al. Mapping genes that contribute to daunorubicin-induced cytotoxicity. Cancer Res. 67(11) , 5425–5433 (2007).
  • Watson VG , Motsinger-ReifA, HardisonNE et al. Identification and replication of loci involved in camptothecin-induced cytotoxicity using CEPH pedigrees. PLoS ONE 6(5) , e17561 (2011).
  • Brown CC , HavenerTM, MedinaMW et al. A genome-wide association analysis of temozolomide response using lymphoblastoid cell lines shows a clinically relevant association with MGMT. Pharmacogenet. Genomics 22(11) , 796–802 (2012).
  • Li L , FridleyB, KalariK et al. Gemcitabine and cytosine arabinoside cytotoxicity: association with lymphoblastoid cell expression. Cancer Res. 68(17) , 7050–7058 (2008).
  • Peters EJ , Motsinger-ReifA, HavenerTM et al. Pharmacogenomic characterization of US FDA-approved cytotoxic drugs. Pharmacogenomics 12(10) , 1407–1415 (2011).
  • Ziliak D , O‘DonnellPH, ImHK et al. Germline polymorphisms discovered via a cell-based, genome-wide approach predict platinum response in head and neck cancers. Transl. Res. 157(5) , 265–272 (2011).
  • Watson VG , HardisonNE, HarrisT, Motsinger-ReifA, McLeodHL. Genomic profiling in CEPH cell lines distinguishes between the camptothecins and indenoisoquinolines. Mol. Cancer Ther.10(10) , 1839–1845 (2011).
  • Dausset J , CannH, CohenD, LathropM, LalouelJM, WhiteR. Centre d‘Etude du Polymorphisme Humain (CEPH): collaborative genetic mapping of the human genome. Genomics6(3) , 575–577 (1990).
  • Brown CC , HavenerTM, MedinaMW, KraussRM, McLeodHL, Motsinger-ReifAA. Multivariate methods and software for association mapping in dose–response genome-wide association studies. BioData Min.5(1) , 21 (2012).
  • Medina MW , GaoF, RuanW, RotterJI, KraussRM. Alternative splicing of 3-hydroxy-3-methylglutaryl coenzyme A reductase is associated with plasma low-density lipoprotein cholesterol response to simvastatin. Circulation118(4) , 355–362 (2008).
  • Barber MJ , MangraviteLM, HydeCL et al. Genome-wide association of lipid-lowering response to statins in combined study populations. PLoS ONE 5(3) , e9763 (2010).
  • Li Y , WillerC, SannaS, AbecasisG. Genotype imputation. Annu. Rev. Genomics Hum. Genet.10 , 387–406 (2009).
  • Purcell S , NealeB, Todd-BrownK et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81(3) , 559–575 (2007).
  • Laurie CC , DohenyKF, MirelDB et al. Quality control and quality assurance in genotypic data for genome-wide association studies. Genet. Epidemiol. 34(6) , 591–602 (2010).
  • Price AL , PattersonNJ, PlengeRM, WeinblattME, ShadickNA, ReichD. Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet.38(8) , 904–909 (2006).
  • Brown C , HavenerTM, EverittL, McLeodH, Motsinger-ReifAA. A comparison of association methods for cytotoxicity mapping in pharmacogenomics. Front. Genet.2 , 86 (2011).
  • Pillai K . Some new test criteria in multivariate analysis. Ann. Math. Statist.26(1) , 117–121 (1955).
  • Li MX , YeungJM, ChernySS, ShamPC. Evaluating the effective numbers of independent tests and significant p-value thresholds in commercial genotyping arrays and public imputation reference datasets. Hum. Genet.131(5) , 747–756 (2012).
  • R Development Core Team. R: a Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Austria (2011).
  • Schmidt WM , KalipciyanM, DornstauderEet al. Dissecting progressive stages of 5-fluorouracil resistance in vitro using RNA expression profiling. Int. J. Cancer 112(2) , 200–212 (2004).
  • Shabason JE , TofilonPJ, CamphausenK. Grand rounds at the National Institutes of Health: HDAC inhibitors as radiation modifiers, from bench to clinic. J. Cell. Mol. Med.15(12) , 2735–2744 (2011).

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Order Reprints Request Corporate Permissions

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

Request Academic Permissions

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.

Related research

People also read lists articles that other readers of this article have read.

Recommended articles lists articles that we recommend and is powered by our AI driven recommendation engine.

Cited by lists all citing articles based on Crossref citations.
Articles with the Crossref icon will open in a new tab.