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FY 2006 Research 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. 34:219-224.
  • Adjei, M.D., Heinze, T.M., Deck, J., Freeman, J.P., Williams, A.J. and Sutherland, J.B. 2007. Acetylation and nitrosation of ciprofloxacin by environmental strains of mycobacteria. Canada Journal of Microbiology. 53(1):144-147.
  • Adjei, M.D., Heinze, T.M., Deck, J.D., Freeman, J.P., Williams, A.J. and Sutherland, J.B. 2006. Transformation of the antibacterial agent norfloxacin by environmental mycobacteria. Applied and Environmental Microbiology. 72:5790-5793.
  • Ahn, H., Moon, H., Fazzari, M.J., Lim, N. and Kodell, R.L., Classification by ensembles from random partitions, Proceedings on US-Korea Conference on Science. Technology and Entrepreneurship Symposium.
  • Ahn, J., Nowell, S.A., Mccann, S.E., Yu, J., Carter, L., Lang, N.P., Kadlubar, F.F., Ratnasinghe, L. and Ambrosone, C.B. 2006. Associations between catalase phenotype and genotype: modification by epidemiologic factors. Cancer Epidemiology, Biomarkers and Prevention. 15(6):1217-1222.
  • Bagnyukova, T.V. and Lushchak, V.I. 2006. Coordinated response of goldfish antioxidant defenses to environmental stress. Aquatic Toxicology. 78:325-331.
  • Beger, R., Computational modeling of biologically active molecules using NMR spectra. 2006. Drug Discovery Today. 11(9-10):429-435.
  • Beger, R., Lehman-McKeeman, L.D. and Thomas, C.A. 2005. Summary recommendations for standardization and reporting of metabolic analyses. Nature Biotechnology. 23(7):833-838.
  • Beger, R., Schnackenberg, L., Holland, R.D. and Dragan, Y. 2006. Metabonomic models of human pancreatic cancer using 1D proton NMR spectra of lipids in plasma. Metabolomics. 2(3):125-134.
  • Binienda, Z.K., Ali, S.F., Virmani, A., Amato, A. and Przybyla-zawislak, B.D. 2006. Co-regulation of dopamine D1 receptor and uncoupling protein 2 expression in 3-nitropropionic acid-induced neurotoxicity: neuroprotective role of L-carnitine. Neuroscience Letters. 410:62-65.
  • Bojanowski, C., Shen, D., Chew, E., Ning, B., Csaky, K.G., Green, R., Chan, C. and Tuo, J. 2006. An Apolipoprotein E variant may protect against age-related macular degeneration through cytokine regulation. Environmental and Molecular Mutagenesis. 47(8):594-602.
  • Boudreau, M.D., Taylor, H., Baker, D.G. and Means, J.C. 2006. Dietary exposure to 2-aminoanthracene induces morphological and immunocytochemical changes in pancreatic tissues of Fischer 344 rats. Toxicological Sciences. 93(1):50-61.
  • Bowyer, J.F. and Schmued, L.C. 2006. Fluoro-Ruby labeling prior to an amphetamine neurotoxic insult shows a definitive massive loss of dopaminergic terminals and axons in the caudate-putamen. Brain Research. 1030:234-246.
  • Bowyer, J.F. and Ali, S.F. 2006. High doses of methamphetamine that cause disruption of the blood brain barrier in limbic regions produce extensive neuronal degeneration in mouse hippocampus. Synapse Journal. 60:521-532.
  • Bowyer, J.F., Pogge, A., Delongchamp, R.R., O’Callaghan, J.P., Patel, K.M., Vrana, K.E. and Freeman, W.M. 2007. A threshold neurotoxic exposure to amphetamine inhibits the expression of genes in the parietal cortex that are involved in synaptic plasticity. Neuroscience. 144(1):66-76.
  • Canales, R.D., Luo, Y., Willey, J.C., Austermiller, B., Barbacioru, C.C., Boysen, C., Hunkapiller, K., Jensen, R.V., Knight, C.R., Lee, K.Y., Ma, Y., Maqsodi, B., Papallo, A., Peters, E., Poulter, K., Ruppel, P.L., Samaha, R.R., Shi, L. 2006. Evaluation of DNA microarray results with quantitative gene-expression platforms. Nature Biotechnology. 24(9):1115-1122.
  • Cerniglia, C.E. and Sutherland, J.B. 2006. Relative roles of bacteria and fungi in polycyclic aromatic hydrocarbon biodegradation and bioremediation of contaminated soils. Fungi in Biogeochemical Cycles. 182-211, (Book Chapter).
  • Chandrika, B., Schnackenberg, L., Raveendran, P. and Wallen, S.L. 2005. High resolution 1H NMR structural studies of sucrose octaacetate in supercritical carbon dioxide. Chemistry. 11(21):6266-6271.
  • Chen, D. and Chen, J.J., 2007. Microarray data analysis in affymetrix gene chip. Quantitative Medical Data Analysis Using Mathematical Tools and Statistical Techniques. 133-157. (Book Chapter).
  • Chen, H. 2006. Recent advances in azo dye degrading enzyme research. Current Protein & Peptide Science. 7:101-111.
  • Chen, H., Hopper, S.L., Ljungdahl, L.G., Li, X. and Cerniglia, C.E. 2006. Isolation of extremely AT-rich genomic DNA and analysis of genes encoding carbohydrate-degrading enzymes from anaerobic fungus, Orpinomyces sp. strain PC-2. Current Microbiology. 53(5):396-400.
  • Chen, H., Li, X., Xu, H., Ljungdahl, L.G. and Cerniglia, C.E. 2006. High level expression and characterization of cyclophilin B gene from the anaerobic fungus Orpinomyces sp. strain PC-2. Protein and Peptide Letter. 13(7):727-732.
  • Chen, J.J., Tsai, C., Moon, H., Ahn, H. and Young, J.F. 2006. Decision threshold adjustment in class prediction. SAR and QSAR in Environmental Research. 17(3):337-352.
  • Chen, T., Guo, L., Sun, Y., Zhang, L., Shi, L., Fang, H., Fuscoe, J. and Mei, N. 2006. Gene-expression profiles distinguish the carcinogenic effects of aristolochic acid in target (kidney) and nontarget (liver) tissues in rats. BMC Bioinformatics. 7(Suppl 2):S20.
  • Chou, M.W. and Fu, P.P. 2006. Formation of DHP-derived DNA adducts in vivo from dietary supplements and Chinese herbal plant extracts containing carcinogenic pyrrolizidine alkaloids. Toxicology and Industrial Health. 22:321-327.
  • Churchwell, M.I., Beland, F.A. and Doerge, D.R. 2006. Quantification of O6-methyl and O6-ethyl deoxyguanosine adducts in C57BL/6N/Tk+/- mice using LC/MS/MS. Journal of Chromatography B. 844:60-66.
  • Cooper, S.M., Latendresse, J.R., Doerge, D.R., Twaddle, N.C., Fu, X. and Delclos, K.B. 2006. Dietary modulation of p-nonylphenol-induced polycystic kidney disease in male Sprague-Dawley rats. Toxicological Sciences. 91(2):631-642.
  • Culp, S., Mellick, P.W., Trotter, R.W., Greenlees, K. and Beland, F.A. 2006. Carcinogenicity of malachite green chloride and leucomalachite green in B6C3F1 mice and F344 rats. Food and Chemical Toxicology. 44(8):1204-1212.
  • Darsey, J.A. and Buzatu, D.A. 2006. Computational Nanotechnology: computational design and analysis of nanosize electronic components and circuit. Handbook of Theoretical and Computational Nanotechnology. 438-465.
  • Dellinger, R.W., Fang, J., Chen, G., Weinberg, R. and Lazarus, P. 2006. Importance of UDP-glucuronosyltransferase 1A10 (UGT1A10) in the detoxification of polycyclic aromatic hydrocarbons: decreased glucuronidative activity of the UGT1A10139lys isoform. Drug Metabolism and Disposition. 34(6):943-949. (Book Chapter).
  • Delongchamp, R.R., Lee, T. and Velasco-Gonzalez, C. 2006. A method for computing the overall statistical significance of a treatment effect among a group of genes. BMC Bioinformatics. 7(Supp)2:S11.
  • Dertinger, S.D., Bishop, M.E., Saito, J., Mcnamee, J.P., Hayashi, M., Zuzuki, T., Asano, N., Nakajima, M., Sack, U., Moore, M., Torous, D.K. and MacGregor, J. 2006. Flow cytometric analysis of micronuclei in peripheral blood reticulocytes: II. Intra-and inter-laboratory comparison with microscopic scoring. Toxicological Sciences. 94:83-91.
  • Desai, V.G., and Fuscoe, J. 2007. Transcriptional profiling for understanding the basis of mitochondrial involvement in disease and toxicity using a mitochondria-specific MitoChip. Mutation Research. 616(1-2):210-212.
  • Edmondson, R.D., Jones, R.C., Holland, R.D., Taylor, J.T., Thyparambil, S.P. and Dragan, Y. 2006. Proteomic analysis of rat liver following chronic treatment with tamoxifen and phenobarbital. 54th ASMS Conference on Mass Spectrometry and Allied Topics. 648.
  • Elkins, C. and Mullis, L. 2006. Mammalian steroid hormones are substrates for the major RND- and MFS-type tripartite multiple drug efflux pumps of Escherichia coli. Journal of Bacteriology. 188:1191-1195.
  • Fang, H., Xie, Q., Perkins, R.G. and Tong, W. 2006. Gene-expression profile exploration of a large dataset on chronic fatigue syndrome. Pharmacogenomics. 7(3):329-440.
  • Fu, P.P., Xia, Q., Boudreau, M.D., Howard, P., Tolleson, W.H. and Wamer, W. 2007. Physiological role of retinyl palmitate in the skin. Vitamin & Hormones. 75:223-256.
  • Fuscoe, J. and Shi, L. 2005. External RNA Controls Consortium. Proposed methods for testing and selecting the ERCC external RNA controls. BMC Genomics. 6:150.
  • Fuscoe, J., Branham, W.S., Melvin, C., Desai, V.G., Moland, C.L., Han, T., Shi, L., Tong, W., Scully, A. and Delongchamp, R.R. 2006. Technical issues involved in obtaining reliable data from microarray experiments. Regulatory Research Perspectives: Impact on Public Health. 6(1):1-22.
  • Gambus, A., Jones, R.C., Sanchez-Diaz, A., Kanemaki, M., Van Deursen, F., Edmondson, R.D. and Labib, K. 2006. GINS maintains association of Cdc45 with MCM in replisome progression complexes at eukaryotic DNA replication fork. Nature Cell Biology. 8(4):358-366.
  • Gatson, J.W., Benz, B.F., Chandrasekaran, C., Satomi, M., Venkateswaran, K. and Hart, M.E. 2006. Bacillus tequilaensis sp. nov. isolated from a 2,000-year-old west Mexican shaft-tomb is closely related to Bacillus subtilis. International Journal of Systematic and Evolutionary Microbiology. 56:1475-1484.
  • Ghoshal, K., Bai, S., Kutay, H., Datta, J., Motiwala, T., Pogribny, I.P., Frankel, W. and Jacob, S.T. 2006. Downregulation of miR-122 in the rodent and human hepatocellular carcinomas. Journal of Cellular Biochemistry. 99(3):671-678.
  • Gomes, A.V., Zong, C., Edmondson, R.D., Li, X., Stefani, E., Zhang, J., Jones, R.C., Thyparambil, S.P., Wang, G., Qiao, X., Bardag-Gorce, F. and Ping, P. 2006. Mapping the murine cardiac 26S proteasome complexes. Circulation Research. 99(4):362-371.
  • Guo, L., Fang, H., Collins, J., Fan, X., Dial, S.L., Wong, A., Mehta, K., Blann, E., Shi, L., Tong, W. and Dragan, Y. 2006. Differential gene expression in mouse primary hepatocytes exposed to the peroxicome proliferators-activated receptor alpha agonists. BMC Bioinformatics. 7(Suppl 2):S18.
  • Guo, L., Lobenhofer, E.K., Wang, C., Shippy, R., Harris, S.C., Zhang, L., Mei, N., Chen, T., Herman, D., Goodsaid, F.M., Hurban, P., Phillips, K.L., Xu, J., Deng, X., Sun, Y., Tong, W., Dragan, Y. and Shi, L. 2006. Rat toxicogenomic study reveals analytical consistency across microarray platforms. Nature Biotechnology. 24(9):1162-1169.
  • Guo, L., Zhang, L., Sun, Y., Muskhelishvili, L., Blann, E., Dial, S.L., Shi, L., Schroth, G. and Dragan, Y. 2006. Differences in hepatotoxicity and gene-expression profiles by antidiabetic PPAR gamma agonists on rat primary hepatocytes and human HepG2 cells. Molecular Diversity. 10(3):349-60.
  • Han, T., Melvin, C., Shi, L., Branham, W.S., Moland, C.L., Pine, P., Fuscoe, J., Thompson, K.L. and Fuscoe, J. 2006. Improvement in the reproducibility and accuracy of DNA microarray quantification by optimizing hybridization conditions. BMC Bioinformatics. 7(Suppl 2):S17.
  • Han, T., Wang, J., Tong, W., Moore, M., Fuscoe, J. and Chen, T. 2006. Microarray analysis distinguishes differential gene-expression patterns from large and small colony thymidine kinase mutants of L5178Y mouse lymphoma cells. BMC Bioinformatics. 7(Suppl 2):S9.
  • Herreno-Saenz, D., Xia, Q. and Fu, P.P. 2006. UVA photoirradiation of halogenated-polycyclic aromatic hydrocarbons leading to induction of lipid peroxidation. International Journal of Environmental Research and Public Health. 3(2):191-195.
  • Hill, L.L., Foote, J.C., Denny, B.D., Erickson, B.D. and Cerniglia, C.E. 2006. Echinacea purpurea supplementation stimulates select groups of human gastrointestinal tract microbiota. Journal of Clinical Pharmacy and Therapeutics. 31:1-6.
  • Holland, R.D., Wiest, M., Morris, M., Baillie, R., Dragan, Y., Schnackenberg, L., Dial, S.L., Naito, A. and Beger, R. 2006. A metabonomics approach to the changes in liver phospholipids from rats treated with Tamoxifin using electrospray ionization mass spectrometry analysis. Proceedings of the 54th ASMS Conference on Mass Spectrometry and Allied Topics. 2457.
  • Hotchkiss, C.E., Blaydes, B.J., Latendresse, J.R. and Ferguson, S.A. 2006. Oral treatment with 13-cis- and all-trans-retinoic acid decreases bone mass in rats. Comparative Medicine. 56(6):502-511.
  • Hsueh, H., Tsai, C. and Chen, J.J. 2007. Incorporating the number of true null hypotheses to improve power in multiple testing: application to gene microarray data. Journal of Statistical Computation and Simulation. 77:757-767.
  • Jackson, L.S., Tolleson, W.H. and Chirtel, S.J. 2006. Thermal inactivation of ricin using infant formula as a food matrix. Journal of Agricultural and Food Chemistry. 54(19):7300-7304.
  • Jhoo, J., Ang, C.Y., Mei, N., Chen, T., Dragull, K. and Tang, C., Kava (Piper methysticum) safety concerns and studies on pipermethystine, an alkaloid in kava. American Chemical Society Symposium Series/Dietary Supplements.
  • Jhoo, J., Freeman, J.P. and Ang, C.Y. 2006. Assessment of kavalactones in kava beverage products and aqueous infusion. Journal of Food Science. 71(6):C345-C351. (Book Chapter).
  • Jhoo, J., Freeman, J.P., Heinze, T.M., Deck, J., Schnackenberg, L., Beger, R., Dragull, K., Tang, C. and Ang, C.Y. 2006. In vitro cytotoxicity of nonpolar constituents from different parts of kava plant (Piper methysticum). Journal of Agricultural and Food Chemistry. 54(8):3157-3162.
  • Jiang, Z., Dragin, N., Jorge-Nebert, L.F., Martin, M.V., Guengerich, F.P., Aklillu, E., Ingelman-Sundberg, M., Hammons, G.J., Lyn-Cook, B.A., Kadlubar, F.F., Saldana, S.N., Sorter, M., Vinks, A.A., Nassr, N., Von Richter, O., and Nebert, D. 2006. Search for an association between the human CYP1A2 genotype and CYP1A2 metabolic phenotype. Pharmacogenetics and Genomics. 16(5):359-367.
  • Ju, Y.H., Fultz, J., Allred, K.F., Doerge, D.R. and Helferich, W.G. 2006. Effects of dietary daidzein and its metabolite, equol, at physiological concentrations on the growth of estrogen-dependent human breast cancer (MCF-7) tumor implanted in ovariectomized athymic mice. Carcinogenesis. 27:856-863.
  • Kadlubar, F.F. 2005. The path to personalized medicine. Sapporo Cancer Seminar Foundation 2005. 60-62.
  • Kasper, P., Uno, Y., Mauthe, R., Asano, N., Douglas, G., Matthews, E., Moore, M., Mueller, L., Nakajima, M., Singer, T. and Speit, G. 2006. Follow-up testing of rodent carcinogens not positive in the standard genotoxicity testing battery: IWGT workgroup report. Mutation Research. 627:106-117. (Book Chapter).
  • Khan, A.A. and Melvin, C. 2007. Identification and molecular characterization of Salmonella spp. from unpasteurized orange juice and identification of new serotype Salmonella strain S. enterica serovar tempe. Food Microbiology. 24(5):539-543.
  • Khan, A.A., Summage-West, C.V., Nawaz, M.S. and Khan, S.A. 2006. Characterization of class 1 integron resistance gene cassettes in Salmonella enterica serovar oslo and bareily from imported seafood. Journal of Antimicrobiology and Chemotheraphy. 58(6):1308-1310.
  • Kim, W., Ahn, H. and Moon, H. 2007. A dose-response trend test via closed-form solutions for constrained MLEs in survival/sacrifice experiments. Statistics in Medicine. 26(3):694-708.
  • Kodell, R.L., Chen, J.J., Delongchamp, R.R. and Young, J.F. 2006. Hierarchical models for probabilistic dose-response assessment. Regulatory Toxicology and Pharmacology. 45:265-272.
  • Koturbash, I., Baker, M., Loree, J., Kutanzi, K., Hudson, D., Pogribny, I.P., Sedelnikova, O., Bonner, W. and Kovalchuk, O. 2006. Epigenetic dysregulation underlies the radiation-induced transgenerational genome instability in vivo. International Journal of Radiation Oncology. 66(2):327-330.
  • Li, X., Ghoshal, K., Datta, J., Bai, S., Pogribny, I.P., Pogribna, M.V., Huang, Y., Young, D. and Jacob, S.T. 2006. Effect of folate and methyl deficient diet on expression of DNA methyltransferases and methyl CpG binding proteins involved in epigenetic gene silencing in livers of F344 rats. Journal of Nutrition. 136:1522-1527.
  • Lin, G., He, X., Ji, H., Shi, L., Davis, R.W. and Zhong, S. 2006. Reproducibility probability score: a metric incorporating measurement variability across labs for gene selection. Nature Biotechnology. 24(12):1476-1477.
  • MacGregor, J., Bishop, M.E., Mcnamee, J.P., Hayashi, M., Asano, N., Wakata, A., Nakajima, M., Moore, M. and Dertinger, S.D. 2006. Flow cytometric analysis of micronuclei in peripheral blood reticulocytes: 1. An efficient method of monitoring chromosomal damage in the rat. Toxicological Sciences. 94:92-107.
  • Martin, V., Groenendyk, J., Steiner, S.S., Guo, L., Dabrowska, M., Parker, J., Muller-Esterl, W., Opas, M. and Michalak, M. 2006. Identification by mutational analysis of amino acid residues essential in the chaperone function of calreticulin. Journal of Biological Chemistry. 281(4):2338-2346.
  • Masui, H. and Hong, H. 2006. Spec2D: a structure elucidation system based on 1H NMR and H-H COSY spectra in organic chemistry. Journal of Chemical Information and Modeling. 46:775-787.
  • Mckinzie, P.B., Delongchamp, R.R., Chen, T. and Parsons, B.L. 2006. ACB-PCR measurement of K-ras codon 12 mutant fractions in livers of Big Blue registered rats treated with N-hydroxy-2-acetylaminofluorene. Mutagenesis. 21(6):391-397.
  • Mei, N., Arlt, V.M., Phillips, D.H., Heflich, R.H. and Chen, T. 2006. DNA adduct formation and mutation induction aristolochic acid in rat kidney and liver. Mutation Research–Fundamental and Molecular Mechanisms of Mutagenesis. 602(1-2):83-91.
  • Mei, N., Guo, L., Fung, C., Zhang, L., Shi, L., Moland, C.L., Dial, S.L., Fuscoe, J. and Chen, T. 2006. Analysis of gene-expression changes in relation to toxicity and tumorigenesis in the livers of Big Blue© transgenic rats fed comfrey (Symphytum officinale). BMC Bioinformatics. 7(Suppl 2):S16.
  • Mei, N., Xia, Q., Chen, L., Moore, M., Chen, T. and Fu, P.P. 2006. Photoclastogenicity of anhydroretinol and 5,6-epoxyretinyl palmitate in mouse lymphoma cells. Chemical Research in Toxicology. 19:1435-1440.
  • Moon, H., Ahn, H. and Kodell, R.L. 2006. A computational tool for testing dose-related trend using an age-adjusted bootstrap-based Poly-k test. Journal of Statistical Software. 16(7):1-15.
  • Moon, H., Ahn, H., Chen, J.J. and Kodell, R.L. Classification of cancer types for individualized treatment using ensembles from random partitions of high-dimensional feature spaces. Proceedings of the Biometrics Section. American Statistical Association.
  • Moore, M. and Chen, T. 2006. Mutagenicity of bromate: implications for cancer risk assessment. Toxicology. 221:190-196.
  • Nakajima, M., Itoh, M., Sakai, H., Fukami, T., Katoh, M., Yamazaki, H., Kadlubar, F.F., Funae, Y. and Yokoi, T. 2006. CYP2A13 expressed in human bladder metabolically activates 4-aminobiphenyl. International Journal of Cancer. 119(11):2520-2526.
  • Nawaz, M.S., Sung, K., Reimschuessel, R., Khan, S.A., Khan, A.A. and Steele, R.S. 2006. Biochemical and molecular characterization of tetracycline-resistant-aeromonas veronii from catfish. Applied and Enviromential Microbiology. 72:6461-6466.
  • Park, J., Dossett, N., Ratnasinghe, L., Sellers, T.A., Chen, L., Lang, N.P., Kadlubar, F.F., Ambrosone, C.B., Tanner, J., Lee, J. Zachariah, B., Heysek, R.V., Patterson, S. and Pow-Sang, J. 2006. Deletion polymorphism of UDP-Glucuronosyltransferase 2B17 and risk of prostate cancer in African-American and Caucasian men. Cancer Epidemiology. Biomarkers and Prevention. 15 (8):1473-1478.
  • Parsons, B.L., Delongchamp, R.R., Beland, F.A. and Heflich, R.H. 2006. Levels of H-ras codon 61 CAA to AAA mutation: response to 4-ABP-treatment and Pms2-deficiency. Mutagenesis. 21(1):29-34.
  • Patterson, T.A., Fang, H., Lobenhofer, E.K., Fuscoe, J., Collins, P.J., Tong, W., Fulmer-Smentek, S., Shi, L., Chu, T., Bao, W., Kawasaki, E.S., Hager, J., Tikhonova, I.R., Walker, S.J., Zhang, L., Hurban, P., and De Longueville, F. 2006. Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project. Nature Biotechnology. 24(9):1140-1150.
  • Pereira, F., Ribeiro, C.F., Ali, S.F. and Macedo, T.R. 2006. Methamphetamine, morphine and their combination: acute changes in striatal dopaminergic transmission evaluated by microdialysis in awake rats. Annals of New York Academy of Sciences. 1074:160-173.
  • Pereira, F., Ribeiro, C.F., Macedo, T.R. and Ali, S.F. 2006. Single or multiple injections of methamphetamine increased dopamine turnover but did not descrease tyrosine hydroxylase levels or cleave Caspase-3 in Caudate-Putamen. Synaps. 60(3):185-193.
  • Pogribny, I.P., Ross, S., Tryndyak, V.P., Pogribna, M.V., Poirier, L.A. and Karpinets, T.V. 2006. Histone H3 lysine 9 and H4 lysine 20 trimethylation and the expression of Suv4-20h2 and Suc-39h1 histone methyltransferases in hepatocarcinogenesis induced by methyl deficiency in rats. Carcinogenesis. 27(6):1180-1186.
  • Pogribny, I.P., Tryndyak, V.P., Muskhelishvili, L., Rusyn, I. and Ross, S. 2007. Methyl deficiency, alterations in global histone modifications, and carcinogenesis. Journal of Nutrition. 137(1):216S-22S.
  • Portilla, D., Li, S., Nagothu, K.K., Megyesi, J., Kaissling, B., Schnackenberg, L., Safirstein, R.L. and Beger, R. 2006. Metabolomic study of cisplatin-induced nephrotoxicity. Kidney International. 69(12):2194-2204.
  • Putt, K.S., Chen, G.W., Pearson, J.M., Sandhorst, J.S., Hoagland, M.S., Kwon, J., Hwang, S., Jin, H., Churchwell, M.I., Cho, M., Helferich, W.G. and Hergenrother, P.J. 2006. Small molecule activation of procaspase-3 to caspase-3 as a personalized anti-cancer strategy. Nature Chemical Biology. 2(10):543-550.
  • Rafii, F. 2006. Beta-lactamase resistance in enterococci. Drug Resistance of Enterococci: Epdemiology and Molecular Mechanisms. 101-115, (Book Chapter).
  • Reid, L., Fuscoe, J. and Shi, L. 2005. Proposed methods for testing and selecting the ERCC external RNA controls. The External RNA Controls Consortium, BMC Genomics. 6:150.
  • Rozman, K.K., Kesner, J.S., Calafat, A.M., Jeffery, E.H., Culty, M., Bhatia, J., Etzel, R.A., Marty, S., Hansen, D.K., Flaws, J.A., Chambers, C., Thomas, J.A., Hoyer, P.B. and Umbach, D. 2006. NTP-CERHR expert panel report on the reproductive and developmental toxicology of soy formula. Birth Defects Research. 77:280-397.
  • Sansbury, L., Caporaso, N.E., Bergen, A., Ratnasinghe, L., Schatzkin, A., Lanza, E., Chaterjee, N., Wanke, K.L., Lehman, T.A., Kalidindi, A. and Modali, R. 2006. Inflammatory cytokine gene polymorphisms, NSAID use, and adenoma polyp resurrence in the olyp Prevention Trial (PPT). Cancer Research. 5(3):494-501.
  • Sansone, S., Rocca-Serra, P., Tong, W., Fostel, J. and Morrison, N. 2006. A strategy capitalizing on synergies–the reporting structure for Biological Investigations (RSBI) Working Group. Omics: A Journal of Integrative Biology. 10(2):164-171.
  • Schmitt, T.C., Biris, A.S., Miller, D.W., Biris, A.R., Lupu, D., Trigwell, S. and Rahman, Z.U. 2006. Analysis of effluent gases during the CCVD growth of multiwall carbon nanotubes from acetylene. Carbon. 44(10):2032-2038.
  • Schnackenberg, L. and Beger, R. 2006. Global metabolic profiling and systems biology in toxicology research and testing. American Drug Discovery. 1(2):22-29.
  • Schnackenberg, L. and Beger, R. 2006. Monitoring the health to disease continuum with metabolomics and systems biology. Pharmacogenomics. 7(7):1077-1086.
  • Schnackenberg, L., Jones, R.C., Thyparambil, S.P., Taylor, J.T., Tong, W., Han, T., Hansen, D.K., Fuscoe, J., Edmondson, R.D., Beger, R. and Dragan, Y. 2006. An integrated study of acute effects of valproic acid in the liver using metabonomics, proteomics, and transcriptomics platforms. OMICS. 10(1):1-14.
  • Shaddock, J.G., Dobrovolsky, V.N., Mittelstaedt, R.A., Heflich, R.H. and Parsons, B.L. 2006. Frequency and types of spontaneous Hprt lymphocyte mutations in Pms2-deficient mice. Fundamental and Molecular Mechanisms of Mutagenesis. 595(1-2):69-79.
  • Shi, L., Reid, L., Jones, W.D., Shippy, R., Warrington, J.A., Baker, S.C., Collins, P.J., De Longueville, F., Kawasaki, E.S., Lee, K.Y., Luo, Y., Sun, Y., Willey, J.C., Setterquist, R.A., Fischer, G.M., Tong, W., Dragan, Y., and Dix, D.J. 2006. The MicroArray Quality Control (MAQC) project shows inter and intraplatform reproducibility of gene-expression measurements. Nature Biotechnology. 24(9):1151-1161.
  • Shi, L., Su, Z.Q., Xie, A.H., Liao, C.Z., Qiao, W., Zhang, D.J., Shan, S., Pan, D.S., Li, Z.B., Ning, Z.Q., Hu, W.M. and Lu, X.P. 2006. An integrated biochemoinformatics system for drug discovery. The Frontiers of Biochip Technologies. 191-208.
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