Compilation of a Comprehensive Gene Panel for Systematic Assessment of Genes that Govern an Individual’s Drug Responses

• Evans WE , JohnsonJA: Pharmacogenomics: the inherited basis for interindividual differences in drug response.Annu. Rev. Genomics Hum. Genet.2, 9–39 (2001).
   PubMed Web of Science ®Google Scholar
• Innocenti F , RatainMJ: ‘Irinogenetics‘ and UGT1A: from genotypes to haplotypes.Clin. Pharmacol. Ther.75(6), 495–500 (2004).
   PubMed Web of Science ®Google Scholar
• Baynes RD , GansertJ: KRAS mutational status as a predictor of epidermal growth factor receptor inhibitor efficacy in colorectal cancer.Am. J. Ther.16(6), 554–561 (2009).
   PubMed Web of Science ®Google Scholar
• Meibohm B , DerendorfH. Basic concepts of pharmacokinetic/pharmacodynamic (PK/PD) modelling. Int. J. Clin. Pharmacol. Ther.35(10), 401–413 (1997).
   PubMed Web of Science ®Google Scholar
• Goodman LS , GilmanA, BruntonLL, LazoJS, ParkerKL: Goodman & Gilman‘s the Pharmacological Basis of Therapeutics. McGraw-Hill Medical Publishing Division, NY, USA (2005).
   Google Scholar
• Harvey RA , ChampePC, FinkelR, CubedduLX, ClarkeMA: Pharmacology. Lippincott Williams & Wilkins, PA, USA (2008).
   Google Scholar
• Meibohm B , Wiley InterScience (Online service): Pharmacokinetics and Pharmacodynamics of Biotech Drugs Principles and Case Studies in Drug Development. Wiley-VCH, Weinheim, Germany, 403 (2006).
   Google Scholar
• Modjtahedi H , EssapenS: Epidermal growth factor receptor inhibitors in cancer treatment: advances, challenges and opportunities.Anticancer Drugs20(10), 851–855 (2009).
   PubMed Web of Science ®Google Scholar
• Hewett M , OliverDE, RubinDL et al.: PharmGKB: the pharmacogenetics knowledge base.Nucleic Acids Res.30(1), 163–165 (2002).
   PubMed Web of Science ®Google Scholar
• Caldwell MD , AwadT, JohnsonJA et al.: CYP4F2 genetic variant alters required warfarin dose.Blood111(8), 4106–4112 (2008).
   PubMed Web of Science ®Google Scholar
• Penning TM , PetrashJM: Aldo-keto Reductases and Toxicant Metabolism. American Chemical Society, Washington, DC, USA (2004).
   Google Scholar
• Knights KM , SykesMJ, MinersJO: Amino acid conjugation: contribution to the metabolism and toxicity of xenobiotic carboxylic acids.Expert Opin. Drug Metab. Toxicol.3(2), 159–168 (2007).
   PubMed Web of Science ®Google Scholar
• Knipp M : Metallothioneins and platinum(II) anti-tumor compounds.Curr. Med. Chem.16(5), 522–537 (2009).
   PubMed Web of Science ®Google Scholar
• Lacana E , AmurS, MummanneniP, ZhaoH, FruehFW: The emerging role of pharmacogenomics in biologics.Clin. Pharmacol. Ther.82(4), 466–471 (2007).
   PubMed Web of Science ®Google Scholar
• Passetti F , FerreiraCG, CostaFF: The impact of microRNAs and alternative splicing in pharmacogenomics.Pharmacogenomics J.9(1), 1–13 (2009).
   PubMed Web of Science ®Google Scholar
• Katzung BG : Basic & Clinical Pharmacology. McGraw-Hill Medical; McGraw-Hill [distributor], NY, USA (2007).
   Google Scholar
• Xie W : Nuclear Receptors in Drug Metabolism. John Wiley & Sons, Hoboken, NJ, USA (2009).
   Google Scholar
• Golan DE . Principles of Pharmacology: The Pathophysiologic Basis of Drug Therapy. Wolters Kluwer Health/Lippincott Williams & Wilkins, PA, USA (2008).
   Google Scholar
• Wishart DS , KnoxC, GuoAC et al.: DrugBank: a knowledgebase for drugs, drug actions and drug targets. Nucleic Acids Res.36(Database issue), D901–D906 (2008).
   PubMed Web of Science ®Google Scholar
• Griffiths-Jones S , SainiHK, van Dongen S, Enright AJ: miRBase: tools for microRNA genomics. Nucleic Acids Res.36(Database issue), D154–D158 (2008).
   PubMed Web of Science ®Google Scholar
• Li M , LiC, GuanW: Evaluation of coverage variation of SNP chips for genome-wide association studies.Eur. J. Hum. Genet.16(5), 635–643 (2008).
   PubMed Web of Science ®Google Scholar
• Wasan KM , BrocksDR, LeeSD, SachsBarrableK, ThorntonSJ: Impact of lipoproteins on the biological activity and disposition of hydrophobic drugs: implications for drug discovery.Nat. Rev. Drug Discov.7(1), 84–99 (2008).
   PubMed Web of Science ®Google Scholar
• Petzinger E , GeyerJ: Drug transporters in pharmacokinetics.Naunyn Schmiedebergs Arch. Pharmacol.372(6), 465–475 (2006).
   PubMed Web of Science ®Google Scholar
• Vasiliou V , VasiliouK, NebertDW: Human ATP-binding cassette (ABC) transporter family.Hum. Genomics3(3), 281–290 (2009).
   PubMedGoogle Scholar
• Pedersen MO , LarsenA, StoltenbergM, PenkowaM: The role of metallothionein in oncogenesis and cancer prognosis.Prog. Histochem. Cytochem.44(1), 29–64 (2009).
   PubMedGoogle Scholar
• Awasthi YC , SharmaR, YadavS, DwivediS, SharmaA, AwasthiS: The nonABC drug transporter RLIP76 (RALBP-1) plays a major role in the mechanisms of drug resistance.Curr. Drug Metab.8(4), 315–323 (2007).
   PubMed Web of Science ®Google Scholar
• Zhang Y , LiM, YaoQ, ChenC: Roles and mechanisms of copper transporting ATPases in cancer pathogenesis.Med. Sci. Monit.15(1), RA1–RA5 (2009).
   PubMed Web of Science ®Google Scholar
• Papadopoulos V , BaraldiM, GuilarteTR et al.: Translocator protein (18kDa): new nomenclature for the peripheral-type benzodiazepine receptor based on its structure and molecular function.Trends Pharmacol. Sci.27(8), 402–409 (2006).
   PubMed Web of Science ®Google Scholar
• Steiner E , HolzmannK, ElblingL, MickscheM, BergerW: Cellular functions of vaults and their involvement in multidrug resistance.Curr. Drug Targets7(8), 923–934 (2006).
   PubMed Web of Science ®Google Scholar
• Sanderson S , EmeryJ, HigginsJ: CYP2C9 gene variants, drug dose, and bleeding risk in warfarin-treated patients: a HuGEnet systematic review and meta-analysis.Genet. Med.7(2), 97–104 (2005).
   PubMed Web of Science ®Google Scholar
• Goetz MP , KnoxSK, SumanVJ et al.: The impact of cytochrome P450 2D6 metabolism in women receiving adjuvant tamoxifen.Breast Cancer Res. Treat.101(1), 113–121 (2007).
   PubMed Web of Science ®Google Scholar
• Mega JL , CloseSL, WiviottSD et al.: Cytochrome p-450 polymorphisms and response to clopidogrel.N. Engl. J. Med.360(4), 354–362 (2009).
   PubMed Web of Science ®Google Scholar
• Cashman JR , ZhangJ: Human flavin-containing monooxygenases.Annu. Rev. Pharmacol. Toxicol.46, 65–100 (2006).
   PubMed Web of Science ®Google Scholar
• Gong B , BoorPJ: The role of amine oxidases in xenobiotic metabolism.Expert. Opin. Drug Metab. Toxicol.2(4), 559–571 (2006).
   PubMed Web of Science ®Google Scholar
• Vasiliou V , PappaA, EsteyT: Role of human aldehyde dehydrogenases in endobiotic and xenobiotic metabolism.Drug Metab. Rev.36(2), 279–299 (2004).
   PubMed Web of Science ®Google Scholar
• Suga T : Drug metabolism in peroxisomes: involvement of peroxisomal β-oxidation system in the oxidative chain-shortening of xenobiotic acyl compounds.Drug Metab. Pharmacokinet.18(3), 155–162 (2003).
   PubMedGoogle Scholar
• Ito M , IkedaY, ArnezJG, FinocchiaroG, TanakaK: The enzymatic basis for the metabolism and inhibitory effects of valproic acid: dehydrogenation of valproyl-CoA by 2-methyl-branched-chain acyl-CoA dehydrogenase.Biochim. Biophys. Acta.1034(2), 213–218 (1990).
   PubMedGoogle Scholar
• Jawien J , GajdaM, RudlingM et al.: Inhibition of five lipoxygenase activating protein (FLAP) by MK-886 decreases atherosclerosis in apoE/LDLR-double knockout mice.Eur. J. Clin. Invest.36(3), 141–146 (2006).
   PubMed Web of Science ®Google Scholar
• Gao J , XiongY, HoYS et al.: Glutathione peroxidase 1-deficient mice are more susceptible to doxorubicin-induced cardiotoxicity.Biochim. Biophys. Acta,1783(10), 2020–2029 (2008).
   PubMed Web of Science ®Google Scholar
• Lu W , UetrechtJP: Peroxidase-mediated bioactivation of hydroxylated metabolites of carbamazepine and phenytoin.Drug Metab. Dispos.36(8), 1624–1636 (2008).
   PubMed Web of Science ®Google Scholar
• Nagasaka A , HidakaH: Effect of antithyroid agents 6-propyl-2-thiouracil and 1-methyl-2-mercaptoimidazole on human thyroid iodine peroxidase.J. Clin. Endocrinol. Metab.43(1), 152–158 (1976).
   PubMed Web of Science ®Google Scholar
• Haglund S , TaipalensuuJ, PetersonC, AlmerS: IMPDH activity in thiopurine-treated patients with inflammatory bowel disease – relation to TPMT activity and metabolite concentrations.Br. J. Clin. Pharmacol.65(1), 69–77 (2008).
   PubMed Web of Science ®Google Scholar
• Smith MA , MarinakiAM, ArenasM et al.: Novel pharmacogenetic markers for treatment outcome in azathioprine-treated inflammatory bowel disease.Aliment Pharmacol. Ther.30(4), 375–384 (2009).
   PubMed Web of Science ®Google Scholar
• Kim YI : Role of the MTHFR polymorphisms in cancer risk modification and treatment.Future Oncol.5(4), 523–542 (2009).
   PubMed Web of Science ®Google Scholar
• Barski OA , TipparajuSM, BhatnagarA: The aldo-keto reductase superfamily and its role in drug metabolism and detoxification.Drug Metab. Rev.40(4), 553–624 (2008).
   PubMed Web of Science ®Google Scholar
• Oppermann U : Carbonyl reductases: the complex relationships of mammalian carbonyl- and quinone-reducing enzymes and their role in physiology.Annu. Rev. Pharmacol. Toxicol.47, 293–322 (2007).
   PubMed Web of Science ®Google Scholar
• Uetrecht J : N-oxidation of drugs associated with idiosyncratic drug reactions.Drug Metab. Rev.34(3), 651–665 (2002).
   PubMed Web of Science ®Google Scholar
• Martinez VG , WilliamsKJ, StratfordIJ, ClynesM, O‘ConnorR: Overexpression of cytochrome P450 NADPH reductase sensitises MDA 231 breast carcinoma cells to 5-fluorouracil: possible mechanisms involved.Toxicol. In vitro22(3), 582–588 (2008).
   PubMed Web of Science ®Google Scholar
• Cerqueira NM , FernandesPA, RamosMJ: Understanding ribonucleotide reductase inactivation by gemcitabine.Chemistry13(30), 8507–8515 (2007).
   PubMed Web of Science ®Google Scholar
• Hatfield JM , WierdlM, WadkinsRM, PotterPM: Modifications of human carboxylesterase for improved prodrug activation.Expert Opin. Drug Metab. Toxicol.4(9), 1153–1165 (2008).
   PubMed Web of Science ®Google Scholar
• Furlong CE : Genetic variability in the cytochrome P450-paraoxonase 1 (PON1) pathway for detoxication of organophosphorus compounds.J. Biochem. Mol. Toxicol.21(4), 197–205 (2007).
   PubMed Web of Science ®Google Scholar
• Decker M , ArandM, CroninA: Mammalian epoxide hydrolases in xenobiotic metabolism and signalling.Arch. Toxicol.83(4), 297–318 (2009).
   PubMed Web of Science ®Google Scholar
• Sperker B , BackmanJT, KroemerHK: The role of β-glucuronidase in drug disposition and drug targeting in humans.Clin. Pharmacokinet.33(1), 18–31 (1997).
   PubMed Web of Science ®Google Scholar
• Kauffman FC , SharpS, AllanBB, BurchellA, CoughtrieMW: Microsomal steroid sulfatase: interactions with cytosolic steroid sulfotransferases.Chem. Biol. Interact.109(1–3), 169–182 (1998).
   PubMed Web of Science ®Google Scholar
• Krynetski E , EvansWE: Drug methylation in cancer therapy: lessons from the TPMT polymorphism.Oncogene22(47), 7403–7413 (2003).
   PubMed Web of Science ®Google Scholar
• Knights KM : Role of hepatic fatty acid:coenzyme A ligases in the metabolism of xenobiotic carboxylic acids.Clin. Exp. Pharmacol. Physiol.25(10), 776–782 (1998).
   PubMed Web of Science ®Google Scholar
• Authier F , MortJS, BellAW, PosnerBI, BergeronJJ: Proteolysis of glucagon within hepatic endosomes by membrane-associated cathepsins B and D.J. Biol. Chem.270(26), 15798–15807 (1995).
   PubMed Web of Science ®Google Scholar
• Authier F , DanielsenGM, KouachM, BriandG, ChauvetG: Identification of insulin domains important for binding to and degradation by endosomal acidic insulinase.Endocrinology142(1), 276–289 (2001).
   PubMed Web of Science ®Google Scholar
• Yamahara H , MorimotoK, LeeVH, KimKJ: Effects of protease inhibitors on vasopressin transport across rat alveolar epithelial cell monolayers.Pharm. Res.11(11), 1617–1622 (1994).
   PubMed Web of Science ®Google Scholar
• Lee TY , Tjin Tham Sjin RM, Movahedi S et al.: Linking antibody Fc domain to endostatin significantly improves endostatin half-life and efficacy. Clin. Cancer Res.14(5), 1487–1493 (2008).
   PubMed Web of Science ®Google Scholar
• Smedsrod B , EinarssonM: Clearance of tissue plasminogen activator by mannose and galactose receptors in the liver.Thromb. Haemost.63(1), 60–66 (1990).
   PubMed Web of Science ®Google Scholar
• Bu G , WilliamsS, StricklandDK, SchwartzAL: Low density lipoprotein receptor-related protein/α 2-macroglobulin receptor is an hepatic receptor for tissue-type plasminogen activator.Proc. Natl Acad. Sci. USA89(16), 7427–7431 (1992).
   PubMed Web of Science ®Google Scholar
• Kostenis E : G proteins in drug screening: from analysis of receptor-G protein specificity to manipulation of GPCR-mediated signalling pathways.Curr. Pharm. Des.12(14), 1703–1715 (2006).
   PubMed Web of Science ®Google Scholar
• Camerino DC , TricaricoD, DesaphyJF: Ion channel pharmacology.Neurotherapeutics4(2), 184–198 (2007).
   PubMed Web of Science ®Google Scholar
• Zhu Y , HuJ, HuY, LiuW: Targeting DNA repair pathways: a novel approach to reduce cancer therapeutic resistance.Cancer Treat. Rev.35(7), 590–596 (2009).
   PubMed Web of Science ®Google Scholar
• Riely GJ , PaoW, PhamD et al.: Clinical course of patients with non-small cell lung cancer and epidermal growth factor receptor exon 19 and exon 21 mutations treated with gefitinib or erlotinib.Clin. Cancer Res.12(3 Pt 1), 839–844 (2006).
   PubMed Web of Science ®Google Scholar
• Plesec TP , HuntJL: KRAS mutation testing in colorectal cancer.Adv. Anat. Pathol.16(4), 196–203 (2009).
   PubMed Web of Science ®Google Scholar
• Toler SM : Oxidative stress plays an important role in the pathogenesis of drug-induced retinopathy.Exp. Biol. Med. (Maywood)229(7), 607–615 (2004).
   PubMed Web of Science ®Google Scholar
• Conklin KA : Chemotherapy-associated oxidative stress: impact on chemotherapeutic effectiveness.Integr. Cancer Ther.3(4), 294–300 (2004).
   PubMedGoogle Scholar
• Ronaldson KJ , McNeilJJ: Improving drug safety by locating genetic markers for hypersensitivity reactions.Med. J. Aust.190(11), 641–643 (2009).
   PubMed Web of Science ®Google Scholar
• Segura-Bruna N , Rodriguez-CampelloA, PuenteV, RoquerJ: Valproate-induced hyperammonemic encephalopathy.Acta Neurol. Scand.114(1), 1–7 (2006).
   PubMed Web of Science ®Google Scholar
• Roden DM : Cellular basis of drug-induced torsades de pointes.Br. J. Pharmacol.154(7), 1502–1507 (2008).
   PubMed Web of Science ®Google Scholar
• Takeuchi F , McGinnisR, BourgeoisS et al.: A genome-wide association study confirms VKORC1, CYP2C9, and CYP4F2 as principal genetic determinants of warfarin dose.PLoS Genet.5(3), e1000433 (2009).
   PubMed Web of Science ®Google Scholar
• Cooper GM , JohnsonJA, LangaeeTY et al.: A genome-wide scan for common genetic variants with a large influence on warfarin maintenance dose.Blood112(4), 1022–1027 (2008).
   PubMed Web of Science ®Google Scholar
• Teichert M , EijgelsheimM, RivadeneiraF et al.: A genome-wide association study of acenocoumarol maintenance dosage.Hum. Mol. Genet.18(19), 3758–3768 (2009).
   PubMed Web of Science ®Google Scholar
• Cui J , TaylorKE, DestefanoAL et al.: Genome-wide association study of determinants of anti-cyclic citrullinated peptide antibody titer in adults with rheumatoid arthritis.Mol. Med.15(5–6), 136–143 (2009).
   PubMed Web of Science ®Google Scholar
• Tanaka Y , NishidaN, SugiyamaM et al.: Genome-wide association of IL28B with response to pegylated interferon-α and ribavirin therapy for chronic hepatitis C.Nat. Genet.41(10), 1105–1109 (2009).
   PubMed Web of Science ®Google Scholar
• Ge D , FellayJ, ThompsonAJ et al.: Genetic variation in IL28B predicts hepatitis C treatment-induced viral clearance.Nature461(7262), 399–401 (2009).
   PubMed Web of Science ®Google Scholar
• Suppiah V , MoldovanM, AhlenstielG et al.: IL28B is associated with response to chronic hepatitis C interferon-α and ribavirin therapy.Nat. Genet.41(10), 1100–1104 (2009).
   PubMed Web of Science ®Google Scholar
• Shuldiner AR , O‘ConnellJR, BlidenKP et al.: Association of cytochrome P450 2C19 genotype with the antiplatelet effect and clinical efficacy of clopidogrel therapy.JAMA302(8), 849–857 (2009).
   PubMed Web of Science ®Google Scholar
• Liu C , BatliwallaF, LiW et al.: Genome-wide association scan identifies candidate polymorphisms associated with differential response to anti-TNF treatment in rheumatoid arthritis.Mol. Med.14(9–10), 575–581 (2008).
   PubMed Web of Science ®Google Scholar
• Yang JJ , ChengC, YangW et al.: Genome-wide interrogation of germline genetic variation associated with treatment response in childhood acute lymphoblastic leukemia.JAMA301(4), 393–403 (2009).
   PubMed Web of Science ®Google Scholar
• Daly AK , DonaldsonPT, BhatnagarP et al.: HLA-B*5701 genotype is a major determinant of drug-induced liver injury due to flucloxacillin.Nat. Genet.41(7), 816–819 (2009).
   PubMed Web of Science ®Google Scholar
• Link E , ParishS, ArmitageJ et al.: SLCO1B1 variants and statin-induced myopathy – a genomewide study.N. Engl. J. Med.359(8), 789–799 (2008).
   PubMed Web of Science ®Google Scholar
• Volpi S , HeatonC, MackK et al.: Whole genome association study identifies polymorphisms associated with QT prolongation during iloperidone treatment of schizophrenia.Mol. Psychiatry14(11), 1024–1031 (2009).
   PubMed Web of Science ®Google Scholar
• Kindmark A , JawaidA, HarbronCG et al.: Genome-wide pharmacogenetic investigation of a hepatic adverse event without clinical signs of immunopathology suggests an underlying immune pathogenesis.Pharmacogenomics J.8(3), 186–195 (2008).
   PubMed Web of Science ®Google Scholar
• Sarasquete ME , Garcia-SanzR, MarinL et al.: Bisphosphonate-related osteonecrosis of the jaw is associated with polymorphisms of the cytochrome P450 CYP2C8 in multiple myeloma: a genome-wide single nucleotide polymorphism analysis.Blood112(7), 2709–2712 (2008).
   PubMed Web of Science ®Google Scholar
• Conrad DF , PintoD, RedonR et al.: Origins and functional impact of copy number variation in the human genome.Nature464(7289), 704–712 (2010).
   PubMed Web of Science ®Google Scholar

▪ Websites

• pharmaADME www.pharmaADME.org
   Google Scholar
• Pharmacogenomics knowledge base www.pharmgkb.org
   Google Scholar
• DrugBank www.drugbank.ca
   Google Scholar
• Comprehensive, high-quality and freely accessible resource of protein sequence and functional information www.uniprot.org
   Google Scholar
• A large collection of protein families, each represented by multiple sequence alignments and hidden Markov models http://pfam.sanger.ac.uk
   Google Scholar
• Searchable database of published miRNA sequences and annotation www.miRBase.org
   Google Scholar
• Searchable, integrated, database of human genes that provides concise genomic, transcriptomic, genetic, proteomic, functional and disease related information on all known and predicted human genes www.genecards.org
   Google Scholar
• US FDA table of valid genomic biomarkers in the context of approved drug labels www.fda.gov/Drugs/ScienceResearch/ResearchAreas/Pharmacogenetics/ucm083378.htm
   Google Scholar