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FY 2007 Scientific Publications

  • Adjei, M.D., Deck, J., Heinze, T.M., Freeman, J.P., Williams, A.J., and Sutherland, J.B. 2007. Identification of metabolites produced from N-phenylpiperazine by Mycobacterium spp.. Journal of Industrial Microbiology and Biotechnology. 34(3):219-224.
  • Ahn, H., Moon, H., Fazzari, M.J., Lim, N., Chen, J.J., and Kodell, R.L. 2007. Classification by ensembles from random partitions for high-dimensional data. Computational Statistics and Data Analysis. 51(12):6166-6179.
  • Arlt, V.M., Glatt, H., Gamboa Da Costa, G., Reynisson, J., Takamura-Enya, T., and Phillips, D.H. 2007. Mutagenicity and DNA adduct formation by the urban air pollutant 2-nitrobenzanthrone. Toxicological Sciences. 98(2):445-457.
  • Bagnyukova, T.V. and Lushchak, V.I. 2007. Oxidative stress and antioxidant defense responses by goldfish tissues to acute change of temperature from 3 to 23° C. Journal of Thermal Biology. 32(4):227-234.
  • Bagnyukova, T.V., Luzhna, L.I., Pogribny, I.P., and Lushchak, V.I. 2007. Oxidative stress and antioxidant defenses in goldfish liver in response to short-term exposure to arsenite. Environmental Molecular Mutagenesis. 48:658-665.
  • Bagnyukova, T.V., Pogribny, I.P., and Chekhun, V.F. 2006. MicroRNAs in normal and cancer cells: a new class of gene expression regulators. Experimental Oncology. 28(4):263-269.
  • Bagnyukova, T.V., Danyliv, S.I., Zin’ko, O.S., and Lushchak, V.I. 2007. Heat shock induces oxidative stress in rotan Perccottus glenii tissues. Journal of Thermal Biology. 32(5):255-260.
  • Beger, R.D. 2007. Cambridge Healthtech Institute’s 7th annual identifying and validating metabolic markers for drug development and clinical studies. Expert Review of Molecular Diagnostics. 7(2):113-115.
  • Bendre, S.V., Shaddock, J.G., Dobrovolsky, V.N., Albertini, R.J., and Heflich, R.H. 2007. Effect of chronic azathioprine treatment on germ-line transmission of Hprt mutation in mice. Environmental and Molecular Mutagenesis. 48(9):744-753.
  • Binienda, Z.K., Przybyla-zawislak, B.D., Robinson, B.L., Salem, N., Virmani, A., Amato, A., and Ali, S.F. 2006. Effects of L-carnitine pretreatment in methamphetamine and 3-nitropropionic acid-induced neurotoxicity. Annals of the New York Academy of Sciences. 1074:74-83.
  • Bowyer, J.F., Pogge, A., Delongchamp, R.R., O’Callaghan, J.P., Patel, K.M., Vrana, K.E., and Freeman, W.M. 2006. A threshold neurotoxic amphetamine exposure inhibits parietal cortex expression of synaptic plasticity-related genes. Neuroscience. 144(1):66-76.
  • Boyko, A., Kathiria, P., Zemp, F.J., Yao, Y., Pogribny, I.P., and Kovalchuk, I. 2007. Transgenerational changes in the genome stability and methylation in pathogen-infected plants. Nucleic Acids Research. 35:1714-1725.
  • Branham, W.S., Melvin, C., Han, T., Desai, V.G., Moland, C.L., Scully, A., and Fuscoe, J. 2007. Elimination of laboratory ozone leads to a dramatic improvement in the reproducibility of microarray gene expression measurements. BMC Biotechnology. 7(8):10.1186-1472.
  • Cederroth, C.R., Vinciguerra, M., Kuhne, F., Madani, R., Doerge, D.R., Visser, T.J., Foti, M., Rohner-Jeanrenaud, F., Vassalli, J., and Nef, S. 2007. A phytoestrogen-rich diet increases energy expenditure and decreases adiposity in mice. Environmental Health Perspectives. 115(10):1467-1473.
  • Cerniglia, C.E. and Sutherland, J.B., Fungal metabolism of polycyclic aromatic hydrocarbons In Microbial Degradation of Aromatic Compounds. 2nd edition. (J. Kukor and G. Zylstra). Marcel Dekker, Inc. (Book Chapter).
  • Chan, P.C., Xia, Q., and Fu, P.P. 2007. Ginkgo biloba leave extract: biological, medicinal, and toxicological effects. Journal of Environmental Science and Health. Part C. Environmental Carcinogenesis and Ecotoxicology Reviews. 25(3):211-244.
  • Chekhun, V.F., Lukyanova, N.Y., Kovalchuk, O., Tryndyak, V.P., and Pogribny, I.P. 2007. Epigenetic profiling of multidrug-resistant human MCF-7 breast adenocarinoma cells reveals novel hyper- and hypmethylated targets. Molecular Cancer Therapeutics. 6:1089-1098.
  • Chen, C., Tsai, C., Tzeng, S., and Chen, J.J. 2007. Gene selection with multiple ordering criteria. BMC Bioinformatics. 8(74).
  • Chen, D.T., Chen, J.J., Cheng, G., Shi, L.H., and Soong, S.J. 2007. A two-stage binomial test approach of gene identification in oligonucleotide arrays. Journal of Biopharmaceutical Statistics. 17(5):903-918.
  • Chen, H.C., Xia, Q., Cherng, S.H., Chen, S., Lai, C.C., Yu, H., and Fu, P.P. 2007. Synthesis and photoirradiation of isomeric ethylchrysenes by UVA light leading to lipid peroxidation. International Journal of Environmental Research and Public Health. 4(2):145-152.
  • Chen, J.J. 2007. Key aspects of analyzing microarray gene expression data. Pharmacogenomics. 8(5):473-482.
  • Chen, J.J., Lee, T., Delongchamp, R.R., Chen, T., and Tsai, C. 2007. Significance analysis of groups of genes in expression profiling studies. Bioinformatics. 23(16):2104-2112.
  • Chen, J.J., Moon, H., and Baek, S. 2007. Tree-based ensemble classifiers for high-dimensional data. Journal of the Chinese Statistical Association. 45:1-17.
  • Chen, J.J., Moon, H., and Kodell, R.L. 2007. A probabilistic framework for noncancer risk assessment. Regulatory Toxicology and Pharmacology. 48:45-50.
  • Chen, J.J., Statistics for environmental teratogenesis in Encyclopedia of Quantitative Risk Assessment. (Book Chapter).
  • Chen, J.J., Wang, S.J., Tsai, C.A., and Lin, C.J. 2007. Selection of differentially expressed genes in microarray data analysis. The Pharmacogenomics Journal. 7(3):212-220.
  • Chilakapati, J., Korrapati, M.C., Hill, R.A., Warbritton, A, Latendresse, J.R., and Mehendale, H.M. 2007. Role of thioacetamide sulfoxide in saturation of toxicokinetics of thioacetamide. Toxicology. 230:105-116.
  • Chilakapati, J., Korrapati, M.C., Shankar, K., Hill, R.A., Warbritton, A., Latendresse, J.R., and Mehendale, H.M. 2007. Role of CYP2E1 and saturation kinetics in the bioactivation of thioacetamide: effects of diet restriction and phenobarbital. Toxicology and Applied Pharmacology. 219(1):72-84.
  • Dearfield, K.L. and Fuscoe, J. 2007. Impact of genomic technologies on regulatory policies—presentations at the 37th annual meeting of the Environmental Mutagen Society. Environmental Molecular Mutagenesis. 48(5):347-348.
  • Dervishi, E., Biris, A.S., Biris, A.R., Lupu, D., Trigwell, S., Miller, D.W., Schmitt, T.C., Buzatu, D.A., and Wilkes, J.G. 2006. Transparent and electrically conductive carbon nanotube-polymer nanocomposite materials for electrostatic charge dissipation. Proceeding of ESA/IEJ/IEEE-IAS/SFE Joint Conference on Electrostatics 2006. 636-646.
  • Desai, V.G., Lee, T., Delongchamp, R.R., Moland, C.L., Branham, W.S., Fuscoe, J.C., and Leakey, J.E. 2007. Development of mitochondria-specific mouse oligonucleotide microarray and validation of data by real-time PCR. Mitochondrion. 7(5):322-329
  • Divi, R.L., Doerge, D.R., Twaddle, N.C., Shockley, M.E., St.Clare, M.C., Harbaugh, J.W., Harbaugh, S.W., and Poirier, M.C. 2008. Metabolism and pharmacokinetics of the combination Zidovudine plus Lamivudine in the adult Erythrocebus patas monkey determined by liquid chromatography-tandem mass spectrometric analysis. Toxicology and Applied Pharmacology. 226:206-211.
  • Dobrovolsky, V.N. and Heflich, R.H. 2007. On the use of the T-REx tetracycline-inducible gene expression system in vivo. Biotechnology and Bioengineering. 98(3):719-723.
  • Dobrovolsky, V.N., Shaddock, J.G., Mittelstaedt, R.A., Bishop, M.E., Lewis, S.M., Lee, F.W., Aidoo, A., Leakey, J.E., Dunnick, J.K., and Heflich, R.H. 2007. Frequency of Hprt mutant lymphocytes and micronucleated erythrocytes in p53-haplodeficient mice treated perinatally with AZT and AZT in combination with 3TC. Environmental and Molecular Mutagenesis. 48(3-4):270-282.
  • Doerge, D.R., Twaddle, N.C., Boettcher, M.I., McDaniel, L.P., and Angerer, J. 2007. Urinary excretion of acrylamide and metabolites in Fischer 344 rats and B6C3F(1) mice administered a single dose of acrylamide. Toxicology Letters. 169(1):34-42.
  • Donthamsetty, S., Bhave, V.S., Mitra, M.S., Latendresse, J.R., and Mehendale, H.M. 2007. Nonalcoholic fatty liver sensitizes rats to carbon tetrachloride hepatotoxicity. Hepatology. 45(2):391-403.
  • Duffy, P.H., Lewis, S.M., Mayhugh, M.A., Trotter, R.W., Hass, B.S., Latendresse, J.R., Thorn, B.T., Tobin, G., and Feuers, R.J. 2008. Neoplastic pathology in male Sprague-Dawley rats fed the AIN-93M purified diet ad libitum or at restricted intakes. Nutrition Research. 28(1):36-42.
  • Elkins, C.A. and Mullis, L.B. 2007. Substrate competition studies using whole cell accumulation assays with the major tripartite multidrug efflux pumps of Escherichia coli. Antimicrobial Agents and Chemotherapy. 51(3):923-929.
  • Esperandi, P., Zhang, J., Rosenzweig, B.A., Vaidya, V.S., Sun, J., Schnackenberg, L., Herman, E.H., Knapton, A., Bonventre, J.V., Beger, R.D., Thompson, K.L., and Hanig, J. 2007. The utility of a rodent model in detecting pediatric drug-induced nephrotoxicity. Toxicological Sciences. 99(2):637-648.
  • Esperandi, P., Zhang, J., Schnackenberg, L., Miller, T.J., Knapton, A., Herman, E.H., Beger, R.D., and Hanig, J.P. 2007. Age-related differences in susceptibility to toxic effects of valproic acid in rats. Journal of Applied Toxicology.
  • Evans, R. and Siitonen, P.H. 2008. Determination of caffeine and sympathomimetic alkaloids in weight loss supplements by high performance liquid chromatography. Journal of Chromatographic Science. 46(1):61-67.
  • Fang, H., Fan, X., Guo, L., Shi, L., Perkins, R.G., Ge, W., Dragan, Y., and Tong, W. 2007. Self-self hybridization as an alternative experiment design to dye swap for two-color microarrays. Omics: A Journal of Integrative Biology. 11(1):14-24.
  • Ferguson, S.A. and Berry, K.J. 2007. Oral Accutane (13-cis-retinoic acid) has no effects on spatial learning and memory in male and female Sprague-Dawley rats. Neurotoxicology and Teratology. 29(2):219-227.
  • Ferguson, S.A., Siitonen, P.H., Cisneros, F.J., Gough, B.J. and Young, J.F. 2006. Steady-state pharmacokinetics of oral treatment with 13-cis-retinoic acid or all-trans-retinoic acid in male and female adult rats. Basic and Clinical Pharmacology & Toxicology. 98:582-587.
  • Foley, S.L., Lynne, A.M., and Nayak, R. 2008. Salmonella challenges: prevalence in swine and poultry and potential pathogenicity of such isolates. Journal of Animal Science. 86(14 Suppl).
  • Fostel, J.M., Burgoon, L., Zwickl, C., Lord, P., Corton, J., Bushel, P.R., Cunningham, M., Fan, L., Edwards, S.W., Hester, S., Stevens, J., Tong, W., Waters, M., Yang, C., and Tennant, R. 2007. Towards a checklist for exchange and interpretation of data from a toxicology study. Toxicological Sciences. 99(1):26-34.
  • Fu, P.P., Xia, Q., Boudreau, M.D., Howard, P.C., Tolleson, W.H., and Wamer, W. 2007. Physiological role of retinyl palmitate in the skin. Vitamin & Hormones. 75:223-256.
  • Fu, P.P., Xia, Q., Yin, J.J., Cherng, S.H., Yan, J., Mei, N., Chen, T., Boudreau, M.D., Howard, P.C., and Wamer, W. 2007. Photodecomposition of vitamin A and photobiological implications for the skin. Photochemistry and Photobiology. 83(2):409-424.
  • Fuscoe, J., Tong, W., and Shi, L. 2007. QA/QC issues to aid regulatory acceptance of microarray gene expression data. Environmental and Molecular Mutagenesis. 48(5):349-353.
  • Gamboa Da Costa, G., Marques, M.M., Fu, X., Churchwell, M.I., Wang, Y., Doerge, D.R., and Beland, F.A. 2007. Effect of N,N-didesmethyltamoxifen upon DNA adduct formation by tamoxifen and alpha-hydroxytamoxifen. Cancer Letters. 257(2):191-198.
  • Gamboa Da Costa, G., Pereira, P.C., Churchwell, M.I., Beland, F.A., and Marques, M.M. 2007. DNA adduct formation in the livers of female Sprague-Dawley rats treated with toremifene or alpha-hydroxytoremifene. Chemical Research in Toxicology. 20(2):300-310.
  • Garey, J. and Paule, M.G. 2007. Effects of chronic low-dose acrylamide exposure on progressive ratio performance in adolescent rats. Neurotoxicology. 28(5):998-1002.
  • Gopee, N.V. and Howard, P.C. 2007. A time course study demonstrating RNA stability in postmortem skin. Experimental and Molecular Pathology. 83(1):4-10.
  • Gopee, N.V., Roberts, D.W., Webb, P., Cozart, C.R., Siitonen, P.H., Warbritton, A.R., Yu, W.W., Colvin, V.L., Walker, N.J., and Howard, P.C. 2007. Migration of intradermally injected quantum dots to sentinel organs in mice. Toxicological Sciences. 98(1):249-257.
  • Govindarajan, R., Ratnasinghe, L., Simmons, D.L., Siegel, E.R., Midathada, M.V., Kim, L., Kim, P.J., Owens, R.J., and Lang, N.P. 2007. Thiazolidinediones and the risk of lung, prostate, and colon cancer in patients with diabetes. Journal of Clinical Oncology. 25(12):1476-1481.
  • Guo, L., Mei, N., Dial, S., Fuscoe, J., and Chen, T. 2007. Comparison of gene-expression profiles altered by comfrey and riddelliine in rat liver. BMC Bioinformatics. 8 Suppl 7:S22.
  • Haefele, A.R., Word, B.R., Xiao, Y., Hammons, G.J., and Lyn-Cook, B.A. 2007. Indole-3-Carbinol (I3C) modulates expression of DNA Methyltransferases 1, 3a, and 3b in pancreatic cancer cells: effects of gender and a novel (C→T) polymorphism in the promoter region of DNMT 3b. International Journal of Cancer Prevention. 2(4):245-255.
  • Hammons, G.J. and Lyn-Cook, B.A. 2007. Natural products in neuroprotection: targeting biotransformation enzymes and DNA methyltransferases. J Environ Neurosci Biomed. 1(1):13-26.
  • Harper, S.B., Dertinger, S.D., Bishop, M.E., Lynch, A.M., Lorenzo, M., Saylor, M., and MacGregor, J.T. 2007. Flow cytometric analysis of micronuclei in peripheral blood reticulocytes III. An efficient method of monitoring chromosomal damage in the beagle dog. Toxicological Sciences. 100(2):406-414.
  • Heemstra, J.M., Kerrigan, S.A., Helferich, W.G., Doerge, D.R., and Boulanger, W.A. 2006. Total synthesis of (S)-equol. Organic Letters. 8(24):5441-5443.
  • Herreno-Saenz, D., Xia, Q., and Fu, P.P. 2007. UVA photoirradiation of methylated benzo[a]pyrene and benzo[e]pyrene leading to induction of lipid peroxidation. International Journal of Environmental Research and Public Health. 4(2):153-157.
  • Hotchkiss, C.E., Latendresse, J., and Ferguson, S.A. 2006. Oral treatment with retinoic acid decreases bone mass in rats. Comparative Medicine. 56:502-511.
  • Hotchkiss, C.E., Wang, C., and Slikker, W. 2007. Effect of prolonged ketamine exposure on cardiovascular physiology in pregnant and infant rhesus monkeys (Macaca mulatta). Journal of the American Association for Laboratory Animal Science. 46(6):21-28.
  • Huang, Y., Blower, P.E., Liu, R., .Dai, Z., Pham, A.N., Moon, H., Fang, J., and Sadee, W. 2007. Chemogenomic analysis identifies geldanamycins as substrates and inhibitors of ABCB1. Pharmaceutical Research. 24(9):1702-1712.
  • Jhoo, J.W., Ang, C.Y., Heinze, T.M., Deck, J., Schnackenberg, L.K., Beger, R.D., Dragull, K., and Tang, C.S. 2007. Identification of C-glycoside flavonoids as potential mutagenic compounds in kava. Journal of Food Science. 72(2):C120-125.
  • Jiang, Y., Fu, P.P. and Lin, G. 2006. Hepatotoxicity of naturally occurring pyrrolizidine alkaloids. Asian Journal of Pharmacodynamics and Pharmacokinetics. 6(3):187-192.
  • Jiao, Y., Su, M., Chen, M., Jia, W., Chou, Y., Huang, Z., Yang, N., and Tong, W. 2007. LC/ESI-MS method for the determination of trimetazidine in human plasma: application to a bioequivalence study on Chinese volunteers. Journal of Pharmaceutical and Biomedical Analysis. 43(5):1804-1807.
  • Ju, Y.H., Doerge, D.R., and Helferich, W.G. 2008. A dietary supplement for female sexual dysfunction, Avlimil, stimulates the growth of estrogen-dependent breast tumors (MCF-7) implanted in ovariectomized athymic nude mice. Food and Chemical Toxicology. 46(1):310-320.
  • Kanthasamy, A., Anantharam, V. Ali, S.F., and Kanthasamy, A.G. 2006. Methamphetamine induces autophagy and apoptosis in a mesencephalic dopaminergic neuronal culture model: role of cathepsin-D in methamphetamine-induced apoptotic cell death. Annals of the New York Academy of Sciences. 1074:234-244.
  • Karpinets, T.V., Greenwood, D.J., Pogribny, I., and Samatova, N. 2006. Bacterial stationary-state mutagenesis and mammalian tumorigenesis as stress-induced cellular adaptations and the role of epigenetics. Current Genomics. 7(8):481-496.
  • Kiess, A.S., Kenney, P.B., and Nayak, R.R. 2007. Campylobacter detection in commercial turkeys. British Poultry Science. 48:567-572.
  • Kim, S.J, Kweon, O., Jones, R.C., Freeman, J.P., Edmondson, R.D., and Cerniglia, C.E. 2007. Complete and integrated pyrene degradation pathway in Mycobacterium vanbaalenii PYR-1 based on systems biology. Journal of Bacteriology. 189(2):464-472.
  • Kodell, R.L. and Chen, J.J. 2007. On the use of hierarchical probabilistic models for characterizing and managing uncertainty in risk/safety assessment. Risk Analysis. 27(2):433-437.
  • Koturbash, I., Boyko, A., Rodriguez-Juarez, R., McDonald, R.J., Tryndyak, V.P., Kovalchuk, I., Pogribny, I.P., and Kovalchuk, O. 2007. Role of epigenetic effectors in maintenance of the long-term persistent bystander effect in spleen in vivo. Carcinogenesis. 28(8):1831-1838.
  • Kovalchuk, O., Tryndyak, V.P., Montgomery, B.A., Boyko, A., Kutanzi, K., Zemp, F.J., Warbritton, A.R., Latendresse, J.R., Kovalchuk, I., Beland, F.A., and Pogribny, I.P. 2007. Estrogen-induced rat breast carcinogenesis is characterized by alterations in DNA methylation, histone modifications, and aberrant microRNA expression. Cell Cycle. 6(16):2010-2018.
  • Kovalenko, V.M., Bagnyukova, T.V., Sergienko, O.V., Bondarenko, L.B., Shayakhmetova, G.M., Matvienko, A.V., and Pogribny, I.P. 2007. Epigenetic changes in the rat livers induced by pyrazinamide treatment. Toxicology and Applied Pharmacology. 225(3):293-299.
  • Kweon, O., Kim, S.J., Jones, R.C., Freeman, J.P., Adjei, M.D., Edmondson, R.D., and Cerniglia, C.E. 2007. A polyomic approach to elucidate the fluoranthene degradative pathway in Mycobacterium vanbaalenii PYR-1. Journal of Bacteriology. 189(3):4635-4647.
  • Latendresse, J.R., Muskhelishvili, L., Warbritton, A., and Tolleson, W.H. 2007. Two cases of uveal amelanotic melanomas in transgenic Tyr-HRAS+ Ink4a/Arf heterozygous mice. Toxicologic Pathology. 35(6):825-832.
  • Lee, F., Wang, X., and Fu, P.P., Good Agriculture Practice (GAP) for the quality assurance and safety protection of traditional Chinese herbs used in dietary supplements. American Chemical Society Monograph. (J. Kukor and G. Zylstra). Marcel Dekker, Inc. (Book Chapter).
  • Li, J., Feuers, R.J., Desai, V.G., Lewis, S.M., Duffy, P.H, Mayhugh, M.A., Cowan, G.S., and Buffington, C.K. 2007. Surgical caloric restriction ameliorates mitochondrial electron transport dysfunction in obese females. Obesity Surgery. 17 (6):800-808.
  • Lin, Z., Zhang, X., Tuo, J., Guo, Y., Green, B., Chan, C.C., Tan, W., Huang, Y., Ling, W., Kadlubar, F.F., Lin, D., and Ning, B. 2008. A variant of the Cockayne syndrome B gene ERCC6 confers risk of lung cancer. Human Mutation. 29(1):113-122.
  • Liu, R., Blower, P.E., Pham, A.N., Fang, J., Dai, Z., Wise, C., Green, B., Teitel, C.H., Ning, B., Ling, W, Lyn-Cook, B.D., Kadlubar, F.F., Sadee, W., and Huang, Y. 2007. Cystine-glutamate transporter SLC7A11 mediates resistence to geldanamycin but not to 17-AAG. Molecular Pharmacology. 72(6):1637-1646.
  • Liu, Z.J., Chen, H., Shaw, N., Hopper, S.L., Chen, L., Chen, S., Cerniglia, C.E., and Wang, B.C. (2007), Crystal structure of an aerobic FMN-dependent azoreductase (AzoA) from Enterococcus faecalis. Archives of Biochemistry and Biophysics. 463:68-77.
  • Luecke, R.H., Pearce, B.A., Wosilait, W.D., Slikker, W., and Young, J.F. 2007. Postnatal growth considerations for PBPK modeling. Journal of Toxicology and Environmental Health. Part A. 70:1027-1037.
  • Lushchak, V.I. and Bagnyukova, T.V. 2007. Hypoxia induces oxidative stress in tissues of a goby, the rotan Perccottus glenii. Comparative Biochemistry and Physiology. Part B, Biochemistry and Molecular Physiology. 148(4):390-397.
  • Lushchak, V.I., Bagnyukova, T.V., Lushchak, O.V. , Storey J.M., and Storey K.B. 2007. Diethyldithiocarbamate injection induces transient oxidative stress in goldfish tissues. Chemico-Biological Interactions. 170(1):1-8.
  • Martins, C., Oliveira, N.G., Pingarilho, M., Costa, G., Martins, V., Marques, M.M., Beland, F.A., Churchwell, M.I., Doerge, D.R., Rueff, J., and Gaspar, J.F. 2007. Cytogenetic damage induced by acrylamide and glycidamide in mammalian cells: correlation with specific glycidamide-DNA adducts. Toxicological Sciences. 95(2):383-390.
  • Mehta, J.L., Sanada, N., Hu C.P., Chen, J., Dandapat, A., Sugawara, F., Satoh, H., Inoue, K., Kawase, Y., Jishage, K., Suzuki, H., Takeya, M., Schnackenberg, L., Beger, R.D., Hermonat, P.L., Thomas, M., and Sawamura, T. 2007. Deletion of LOX-1 reduces atherogenesis in LDLR knockout mice fed high cholesterol diet, Circulation Research. 100:1634-1642.
  • Mei, N., Guo, L., Liu, R., Fuscoe, J.C., and Chen, T. 2007. Gene-expression changes induced by tumorigenic pyrrolizidine alkaloid riddelliine in liver of Big Blue® rats. BMC Bioinformatics. 8 Suppl 7:S4.
  • Mei, N., Hu, J., Churchwell, M.I., Guo, L., Moore, M.M., Doerge, D.R., and Chen, T. 2008. Genotoxic effects of acrylamide and glycidamide in mouse lymphoma cells. Food and Chemical Toxicology. 46:628-636.
  • Mitra, M.S., Donthamsetty, S., White, B., Latendresse, J.R., and Mehendale, H.M. 2007. Mechanism of protection of moderately diet restricted rats against doxorubicin-induced acute cardiotoxicity. Toxicology and Applied Pharmacology. 225(1):90-101.
  • Moffit, J.S., Koza-Taylor, P.H., Holland, R.D., Thibodeau, M.S., Beger, R.D., Lawton, M.P., and Manautou, J.E. 2007. Differential gene expression in mouse liver associated with the hepatoprotective effect of clofibrate. Toxicology and Applied Pharmacology. 222:169-179.
  • Moon, H., Ahn, H., Kodell, R.L., Lin, C., Baek, S., and Chen, J.J. 2006. Classification methods for the development of genomic signatures from high-dimensional genomic data. Genome Biology. 7(12):R121.
  • Moon, H., Ahn, H., Kodell, R.L., Baek, S., Lin, C.J., and Chen, J.J. 2007. Ensemble method for classification of patients for personalized medicine with high-dimensional data. Artificial Intelligence in Medicine. 41:197-207.
  • Nawaz, M., Khan, A.A., Khan, S., Sung, K., and Steele, R. 2008. Isolation and characterization of tetracycline-resistant Citrobacter spp. from catfish. Food Microbiology. 25(1):85-91.
  • Nayak, R.R., Call, V., Kaldhone, P., Tyler, C., Anderson, G., Phillips, S., Kerdahi, K.F., and Foley, S.L. 2007. Comparison of Salmonella enterica serovar Heidelberg susceptibility testing results. Clinical Medicine and Research. 5(2):98-105.
  • Philip, B.K., Anand, S.S., Palkar, P.S., Mumtaz, M.M., Latendresse, J.R., and Mehendale, H.M. 2006. Subchronic chloroform priming protects mice from a subsequently administered lethal dose of chloroform. Toxicology and Applied Pharmacology. 216(1):108-121.
  • Philip, B.K., Mumtaz, M.M., Latendresse, J.R., and Mehendale, H.M. 2007. Impact of repeated exposure on toxicity of perchloroethylene in Swiss Webster mice. Toxicology. 232(1-2):1-14.
  • Piper, B.J., Fraiman, J.B., Owens, C.B., Ali, S.F., and Meyer, J.S. 2008. Dissociation of the Neurochemical and Behavioral Toxicology of MDMA (‘Ecstasy’) by Citalopram. Neuropsychopharmacology. 33(5):1192-1205.
  • Pogribny, I.P., Bagnyukova, T.V., Tryndyak, V.P., Muskhelishvili, L., Rodriguez-Juarez, R., Kovalchuk, O., Han, T., Fuscoe, J.C., Ross, S., and Beland, F.A. 2007. Gene expression profiling reveals underlying molecular mechanisms of the early stages of tamoxifen-induced rat hepatocarcinogenesis. Toxicology and Applied Pharmacology. 225(1):61-69.
  • Pogribny, I.P., Rusyn, I., and Beland, F.A. 2008. Epigenetic aspects of genotoxic and non-genotoxic hepatocarcinogeneis: studies in rodents. Environmental Molecular Mutagenesis. 49(1)9-15.
  • Pogribny, I.P., Tryndyak, V.P., Boyko, A., Rodriguez-Juarez, R., Beland, F.A., and Kovalchuk, O. 2007. Induction of microRNAome deregulation in rat liver by long-term tamoxifen exposure. Mutation Research. 619(1-2):30-37.
  • Pogribny, I.P., Tryndyak, V.P., Woods, C.G., Witt, S.E., and Rusyn, I. 2007. Epigenetic effects of the continuous exposure to peroxisome proliferator WY-14,643 in mouse liver are dependent upon peroxisome proliferator activated receptor alpha. Mutation Research. 625(1-2):62-71.
  • Ponce, E.R., Khan, A.A., Cheng, C., Summage-West, C.V., and Cerniglia, C.E. 2008. Prevalence and characterization of Salmonella enterica serovar Weltevreden from imported seafood. Food Microbiology. 25(1):29-35.
  • Portilla, D., Schnackenberg, L., and Beger, R.D. 2007. Metabolomics as an extension of proteomic analysis: study of acute kidney injury. Seminars in Nephrology. 27(6):609-620.
  • Portilla, D., Schnackenberg, L., and Beger, R., Metabolic approaches to novel biomarker development in Biomarkers and Renal Disease (Mitchell Rosner, M.D. & Mark Okusa, M.D.). Nova Publications. (Book Chapter).
  • Raffoul, J.J., Banerjee, S., Che, M., Knoll, Z.E., Doerge, D.R., Abrams, J., Kucuk, O., Sarkar, F.H., and Hillman, G.G. 2007. Soy isoflavones enhance radiotherapy in a metastatic prostate cancer model. International Journal of Cancer. 120(11):2491-2498.
  • Rafii, F. and Park, M. 2007. Substitutions of amino acids in alpha-helix-4 of gyrase A confer fluoroquinolone resistance on Clostridium perfringens. Archives of Microbiology. 187(2):137-144.
  • Rafii, F. and Shahverdi, A.R. 2007. Comparison of essential oils from three plants for enhancement of antimicrobial activity of nitrofurantion against enterobacteria. Chemotherapy. 53(1):21-25.
  • Rafii, F., Jackson, L.D., Ross, I.A., Heinze, T.M., Lewis, S.M., Aidoo, A., Lyn-Cook, L., and Manjanatha, M. 2007. Metabolism of daidzein by fecal bacteria in rats. Comparative Medicine. 57(3):282-286.
  • Rozman, K.K., Bhatia, J., Calafat, A.M., Chambers, C., Culty, M., Etzel, R.A., Flaws, J.A., Hansen, D.K., Hoyer, P.B. Jeffery, E.H., Kesner, J.S., Marty, S., Thomas, J.A., and Umbach, D. 2006. NTP-CERHR expert panel report on the reproductive and developmental toxicity of genistein. Birth Defects Research. Part B, Developmental and Reproductive Toxicology. 77(6):485-638.
  • Schnackenberg, L. and Beger, R. 2008. The role of metabolic biomarkers in drug toxicity studies. Toxicology Mechanisms and Methods. 18(4):301-311.
  • Schnackenberg, L., Dragan, Y., Reily, M.D., Robertson, D.G., and Beger, R.D. 2007. Evaluation of NMR spectral data of urine in conjunction with measured clinical chemistry and histopathology parameters to assess the effects of liver and kidney toxicants. Metabolomics. 3(2):87-100.
  • Schnackenberg, L., Sun, J., Esperandi, P., Holland, R.D., Hanig, J., and Beger, R.D. 2007. Metabonomics evaluations of age-related changes in the urinary compositions of male Sprague-Dawley rats and effects of data normalization methods on statistical and quantitative analysis. BMC Bioinformatics. 8(Suppl 7):S3.
  • Schnackenberg, L.K. 2006. Metabolomics Special Focus: an introduction. Pharmacogenomics. 7(7):1053-1054.
  • Schnackenberg, L.K. 2007. Global metabolic profiling and its role in systems biology to advance personalized medicine in the 21st Century. Expert Review of Molecular Diagnostics. 7(3):247-259.
  • Shi, L., Perkins, R.G., and Tong, W., The current status of DNA microarrays in Microarrays: New Development Towards Recognition of Nucleic Acid and Protein Signatures. (K. Dill, R. Liu, and P. Grodzinski). Springer. (Book Chapter).
  • Slikker, W., Paule, M.G., Wright, L.K., Patterson, T.A., and Wang, C. 2007. Systems biology approaches for toxicology. Journal of Applied Toxicology. 27(3):201-217.
  • Slikker, W., Zou, X., Hotchkiss, C.E., Divine, B.L., Sadovova, N.V., Twaddle, N.C., Doerge, D.R., Scallet, A.C., Patterson, T.A., Hanig, J.P., Paule, M.G., and Wang, C. 2007. Ketamine-induced neuronal cell death in the perinatal rhesus monkey. Toxicological Sciences. 98(1):145-158.
  • Starlard-Davenport, A., Lyn-Cook, B.A., and Radominska-Pandya, A. 2008. Novel identification of UDP-glucuronosyltransferase 1A10 as an estrogen regulated target gene. Steroids. 73(1):139-147.
  • Su, Z., Hong, H., Perkins, R.G., Shao, X., Cai, W., and Tong, W. 2007. Consensuus analysis of multiple classifiers using non-repetitive variables: diagnostic application to microarray gene expression data. Computational Biology and Chemistry. 31(1):48-56.
  • Su, Z., Hong, H., Tong, W., Perkins, R.G., Shao, X., and Cai, W. 2007. Identification of differentially expressed genes using disjoint principal component analysis coupled with genetic algorithm. Chemical Journal of Chinese Universities. 28(9):1640-1644.
  • Sumner, L.W., Amberg, A., Barrett, D., Beale, M.H., Beger, R.D., Daykin, C., Fan, T.W., Fiehn, O., Goodacre, R., Griffin, J.L., Hankemeier, T., Hardy, N., Harnly, J., Higashi, R., Kopka, J., Lane, A.N., Lindon, J.C., Marriott, P., Nicholls, A.W., Reily, M.D., Thaden, J., and Viant, M. 2007. Proposed minimum reporting standards for chemical analysis. Metabolomics. 3(3):211-221.
  • Tolleson, W.H., Melanin and neuromelanin in the nervous system in Encyclopedic Reference of Neuroscience (John J. Haddad, Ph.D.). (Book Chapter).
  • Tsai, C., Chen, D.T., Chen, J.J., Balch, C.M., Thompson, J.F., and Soong, S.J. 2007. An integrated tree-based classification approach to prognostic grouping with application to localized melanoma patients. Journal of Biopharmaceutical Statistics. 17(3):445-460.
  • Turesky, R.J., Goodenough, A., Ni, W., Mcnaughton, L., Lemaster, D., Holland, R.D., Wu, R.W., and Felton, J.S. 2007. Identification of 2-amino-1,7-dimethylimidazo[4.5-g]quinoxaline: an abundant mutagenic heterocyclic aromatic amine formed in cooked beef. Chemical Research in Toxicology. 20:520-530.
  • Virmani, A., Binienda, Z.K., Ali, S., and Gaetani, F. 2006. Links between nutrition, drug abuse and the metabolic syndrome. Annals of the New York Academy of Sciences. 1074:303-314.
  • Virmani, A., Schmued, L.C., Gaetani, F., Ali, S.F., and Binienda, Z.K. 2007. Encephalopathies related to abuse of psychoactive drugs in Drug Related Encephalopathies (Prof. GianPietro Sechi). Ch 6, Nova Science Inc. New York. (Book Chapter).
  • Virmani, M.A., Gaetani, F., Binienda, Z.K., and Ali, S.F. 2006. Role of coenzyme Q10 in the metabolic approach to neuroprotection. Agro FOOD Industry Hi-Tech. 17:20-22.
  • Wagner, R.D., Effects of microbiota on GI health: gnotobiotic research in GI Microbiota and Regulation of the Immune System (Gary Huffnagel and Mairi Noverr). Landes Bioscience,.Georgetown, Texas. (Book Chapter).
  • Wang, C., Patterson, T.A., Wright, L.K., Paule, M.G. and Slikker, W. 2007. Application of pharmacogenomics to rodent and nonhuman primate neuro-plasticity and -toxicity during development, Evolutionary Molecular Strategies in Marcelo Canonaco and Rosa Maria Facciolo (Eds.). Evolutionary molecular strategies and plasticity. Research Signpost. Kerala, India. 343-378. (Book Chapter).
  • Wang, J.C., Xu, Z., Fang, H., Duhart, H.M., Patterson, T.A., and Ali, S.F. 2007. Gene expression profiling of MPP-treated MN9D cells: a mechanism of toxicity study. Neurotoxicology. 28(5):979-987.
  • Welsh, W.J., Tong, W., Fang, H., and Georgopoulos, P., Toxicoinformatics: An Introduction in Computational Toxicology: Risk Assessment for Pharmaceutical and Environmental Chemicals (Sean Ekins, M.Sc., Ph.D., D.Sc.). (Book Chapter).
  • Williams, A.J., Deck, J., Freeman, J.P., Chiarelli, M., Adjei, M.D., Heinze, T.M., and Sutherland, J.B. 2007. Biotransformation of flumequine by the fungus Cunninghamella elegans. Chemosphere. 67(2):240-243.
  • Wright, L.K. and Paule, M.G. 2007. Response sequence difficulty in an incremental repeated acquisition (learning) procedure. Behavioural Processes. 75(1):81-84.
  • Wright, L.K., Pearson, E.C., Hammond, T.G., and Paule, M.G. 2007. Behavioral effects associated with chronic ketamine or remacemide exposure in rats. Neurotoxicology and Teratology. 29(3):348-359.
  • Wright, L.K., Popke, E.J., Allen, R.R., Pearson, E., Hammond, T., and Paule, M.G. 2007. Effect of chronic MK-801 and/or phenytoin on the acquisition of complex behaviors in rats. Neurotoxicology and Teratology. 29(4):476-491.
  • Wu, A., Pike, M.C., Williams, L.D., Spicer, D., Tseng, C.C., Churchwell, M.I., and Doerge, D.R. 2007. Tamoxifen, soy, and lifestyle factors in Asian American women with breast cancer. Journal of Clinical Oncology. 25(21):3024-3030.
  • Xia, Q., Yin, J.J., Fu, P.P., and Boudreau, M.D. 2007. Photo-irradiation of Aloe vera by UVA - formation of free radicals, singlet oxygen, superoxide, and induction of lipid peroxidation. Toxicology Letters. 168(2):165-175.
  • Xiao, Y., Word, B., Starlard-Davenport, A., Haefele, A., Lyn-Cook, B.D., and Hammons, G. 2008. Age and gender affect DNMT3a and DNMT3b expression in human liver. Cell Biology Toxicology. 24(3):265-272.
  • Young, J.F., Luecke, R.H., and Doerge, D.R. 2007. Physiologically based pharmacokinetic/pharmacodynamic model for acrylamide and its metabolites in mice, rats, and humans. Chemical Research in Toxicology. 20(3):388-399.
  • Zou, X., Sadovova, N.V., Patterson, T.A., Divine, B.L., Hotchkiss, C.E., Ali, S.F., Hanig, J.P., Paule, M.G., Slikker, W. and Wang, C. 2008. The effects of L-carnitine on the combination of inhalation anesthetic-induced developmental neuronal apoptosis in the rat frontal cortex. Neuroscience. 151(4):1053-1065.
 

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