Superfund Publications

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Patel, N. S., Doycheva, I., Peterson, M. R., Hooker, J., Kisselva, T., Schnabl, B., Seki, E., Sirlin, C. B., Loomba, R. (2014) Effect of Weight Loss on Magnetic Resonance Imaging Estimation of Liver Fat and Volume in Patients With Nonalcoholic Steatohepatitis. Clin Gastroenterol Hepatol. pii: S1542-3565(14)01316-0. doi: 10.1016/j.cgh.2014.08.039.

PubMedID: 25218667

Kamata, H., Honda, S., Maeda, S., Chang, L., Hirata, H., Karin, M.  (2005) Reactive oxygen species promote TNFalpha-induced death and sustained JNK activation by inhibiting MAP kinase phosphatases. Cell. 120, 649-61. doi: 10.1016/j.cell.2004.12.041.

PubMedID: 15766528

The TM6SF2 variants, novel genetic predictors for nonalcoholic steatohepatitis. (2015) Roh, Y. S., Loomba, R., Seki, E. Gastroenterology. 148(1), 252-4.

PubMedID: 25451657

Roh, Y. S., Loomba, R., Seki, E. (2014) The TM6SF2 Variants, Novel Genetic Predictors for Nonalcoholic Steatohepatitis. Gastroenterology. pii: S0016-5085(14)01417-6.

PubMedID: 25451657

Kamata, H., Honda, S., Maeda, S., Chang, L., Hirata, H., Karin, M.  (2005) Reactive oxygen species promote TNFalpha-induced death and sustained JNK activation by inhibiting MAP kinase phosphatases. Cell. 120, 649-61.

PubMedID: 15766528

Sung, D. Y., Lee, D., Harris, H., Raab, A., Feldmann, J., Meharg, A., Kumabe, B., Komives, E. A., Schroeder, J. I. (2007)  Identification of an arsenic tolerant double mutant with a thiol-mediated component and increased arsenic tolerance in phyA mutants. Plant J49, 1064-107. doi: 10.1111/j.1365-313X.2006.03018.x.

PubMedID: 17335514

Bencheikh-Latmani, R., Obraztsova, A., Mackey, M. R., Ellisman,M. H., Tebo, B. M., (2007) Toxicity of Cr(lll) to Shewanella sp. strain MR-4 during Cr(VI) reduction. Environ Sci Technol. 41(1), 214-20.

PubMedID: 17265950
PubMedID: 15630080

Greten, F. R., Eckmann, L., Greten, T. F., Park, J. M., Li, Z. W., Egan, L. J., Kagnoff, M. F., Karin, M., (2004) IKKbeta links inflammation and tumorigenesis in a mouse model of colitis-associated cancer. Cell. 118(3), 285-96.

PubMedID: 15294155

De Jaco, A., Comoletti, D., Kovarik, Z., Gaietta, G., Radic, Z., Lockridge, O., Ellisman, M. H., Taylor, P. A., (2006) mutation linked with autism reveals a common mechanism of endoplasmic reticulum retention for the alpha,beta-hydrolase fold protein family. J Biol Chem. 281(14), 9667-76.

PubMedID: 16434405

Lee, D. A., Chen, A., Schroeder, J. I. (2003) ars1, an Arabidopsis mutant exhibiting increased tolerance to arsenate and increased phosphate uptake. Plant J. 35(5), 637-46.

PubMedID: 12940956

Comoletti, D., De Jaco, A., Jennings, L. L., Flynn, R. E., Gaietta, G., Tsigelny, I., Ellisman, M. H., (2004) Taylor P.The Arg451Cys-neuroligin-3 mutation associated with autism reveals a defect in protein processing. J Neurosci. 24(20), 4889-93

PubMedID: 15152050

Middleton, S. S., Latmani, R. B., Mackey, M. R., Ellisman, M. H., Tebo, B. M., Criddle, C.S. (2003) Cometabolism of Cr(VI) by Shewanella oneidensis MR-1 produces cell-associated reduced chromium and inhibits growth. Biotechnol Bioeng. 83(6), 627-37.

PubMedID: 12889027

Mäser, P., Eckelman, B., Vaidyanathan, R., Horie, T., Fairbairn, D. J., Kubo, M., Yamagami, M., Yamaguchi, K., Nishimura, M., Uozumi, N., Robertson, W., Sussman, M. R., Schroeder, J. I. (2002) Altered shoot/root Na+ distribution and bifurcating salt sensitivity in Arabidopsis by genetic disruption of the Na+ transporter AtHKT1. FEBS Lett. 531(2), 157-61.

PubMedID: 12417304

Bonzo, J. A., Belanger, A., and Tukey, R. H. (2007) The role of chrysin and the Ah receptor in induction of the human UGT1A1 gene in vitro and in transgenic UGT1 mice. Hepatology. 45, 349-360.

PubMedID: 17256720

Shi, J., Koeppe, J. R., Komives, E. A., Taylor, P., (2006) Ligand-induced conformational changes in the acetylcholine-binding protein analyzed by hydrogen-deuterium exchange mass spectrometry. J Biol Chem. 281(17), 12170-7.

PubMedID: 16484218

Operaña, T. N., Nguyen, N., Chen, S., Beaton, D. and Tukey, R. H. (2007) Human CYP1A1GFP expression in transgenic mice serves as a biomarker for environmental toxicant exposure. Toxicol Sci. 95(1):98-107. doi: 10.1093/toxsci/kfl144.

PubMedID: 17065433

Platten, J. D., Cotsaftis, O., Berthomieu, P., Bohnert, H., Davenport, R. J., Fairbairn, D. J., Horie, T., Leigh, R.A., Lin, H. X., Luan, S., Maser, P., Pantoja, O., Rodriguez-Navarro, A., Schachtman, D. P., Schroeder, J. I., Sentenac, H., Uozumi, N., Very AA, Zhu JK, Dennis ES, Tester M. (2006) Nomenclature for HKT transporters, key determinants of plant salinity tolerance. Trends Plant Sci. 11, 372-374. doi: 10.1016/j.tplants.2006.06.001.

PubMedID: 16809061

Jennings, L. L., Malecki, M., Komives, E. A., Taylor, P., (2003) Direct analysis of the kinetic profiles of organophosphate-acetylcholinesterase adducts by MALDI-TOF mass spectrometry. Biochemistry. 42(37), 11083-91.

PubMedID: 12974645

Machemer, D. E. W., and Tukey, R. H. (2005) The role of protein kinase C in regulation of TCDD-mediated CYP1A1 gene expression. Toxicological Sciences. 87, 27-37.

PubMedID: 15947024

Schroeder, J. I., Nambara, E. (2006) A quick release mechanism for abscisic acid. Cell. 126, 1023-1025. doi: 10.1016/j.cell.2006.09.001.

PubMedID: 16990126

Dooley, C. T., Dore, T. M., Hanson, G. T., Jackson, W. C., Remington, S. J., Tsien, R. Y., (2004) Imaging dynamic redox changes in mammalian cells with green fluorescent protein indicators. J. Biol. Chem. 279(21), 22284-93.

PubMedID: 14985369

Ghassemian, M., Waner, D., Tchieu, J., Gribskov, M., Schroeder, J. I. (2001) An integrated Arabidopsis annotation database for Affymetrix Genechip data analysis, and tools for regulatory motif searches. Trends Plant Sci. 6(10), 448-9. doi: 10.1016/S1360-1385(01)02092-1.

PubMedID: 11590042

Chen, S., Operana, T., Bonzo, J., Nguyen, N., Tukey R. H. (2005) Erk kinase inhibition stabilizes the aryl hydrocarbon receptor. J Biol Chem. 280(6):4350-9. doi: 10.1074/jbc.M411554200.

PubMedID: 15572374

Schroeder, J. I., Kuhn, J. M. (2006) Plant biology abscisic acid in bloom. Nature. 439, 277-278. doi: 10.1038/439277a

PubMedID: 16421556

Clemens, S., Schroeder, J. I., Degenkolb, T. (2001) Caenorhabditis elegans expresses a functional phytochelatin synthase. Eur J Biochem. 268(13), 3640-3. doi: 10.1046/j.1432-1327.2001.02293.x.

 
PubMedID: 11432729

Seki, E. (2015) HEDGEHOG signal in Hepatocytes mediates Macrophage Recruitment: A New Mechanism and Potential Therapeutic Target for Fatty Liver Disease. Hepatology.  doi: 10.1002/hep.28381.

PubMedID: 26638191

Sunarpi, Horie, T., Motoda, J., Kubo, M., Yang, H., Yoda, K., Horie, R., Chan, W., Leung, H. Y., Hattori, K., Konomi, M., Osumi, M., Yamagami, M., *Schroeder, J. I., *Uozumi, N. (* corresponding authors) (2005)  Enhanced salt tolerance mediated by AtHKT1 transporter-induced Na+ unloading from xylem parenchyma cells. Pl Journal. 44, 928-938. doi: 10.1111/j.1365-313X.2005.02595.x

PubMedID: 16359386

Li, Y., Dhankher, O. P., Carreira, L., Lee, D., Chen, A., Schroeder, J. I., Balish, R. S., Meagher, R. B. (2004) Overexpression of phytochelatin synthase in Arabidopsis leads to enhanced arsenic tolerance and cadmium hypersensitivity. Plant Cell Physiol. 45, 1787-1797. doi: 10.1093/pcp/pch202.

PubMedID: 15653797

Greten, F. R., Eckmann, L., Greten, T. F., Park, J. M., Li, Z. W., Egan, L. J., Kagnoff, M. F., Karin, M. (2004) IKKbeta links inflammation and tumorigenesis in a mouse model of colitis-associated cancer. Cell. 118(3), 285-96. doi: 10.1016/j.cell.2004.07.013

PubMedID: 15294155

Yueh, M. F., Huang, Y. H., Hiller, A., Chen, S., Nguyen, N., Tukey, R. H. (2003) Involvement of the xenobiotic response element (XRE) in Ah receptor-mediated induction of human UDP-glucuronosyltransferase 1A1. J Biol Chem. 278(17), 15001-6. doi: 10.1074/jbc.M300645200.

PubMedID: 12566446

Wycisk, K., Kim, E. J., Schroeder, J. I., Kramer, U. (2004) Enhancing the First Enzymatic Step in Histidine Biosynthesis Pathway Increases the Free Histidine Pool and Nickel Tolerance in Arabidosis Thaliana. FEBS Letters. 578, 128-134. doi: 10.1016/j.febslet.2004.10.086

PubMedID: 15581629

Bonizzi, G., Karin, M. (2004) The two NF-kappaB activation pathways and their role in innate and adaptive immunity. Trends Immunol. 25(6), 280-8. doi: 10.1016/j.it.2004.03.008

PubMedID: 15145317

Hartmann P., Hochrath K., Horvath A., Chen P., Seebauer C.T., Llorente C., Wang L., Alnouti Y., Fouts D.E., Stärkel P., Loomba R., Coulter S., Liddle C., Yu R.T., Ling L., Rossi S.J., DePaoli A.M., Downes M., Evans R.M., Brenner D.A., Schnabl B. (2017) Modulation of the intestinal bile acid-FXR-FGF15 axis improves alcoholic liver disease in mice. Hepatology. doi: 10.1002/hep.29676.

PubMedID: 29159825

Nguyen, N., Bonzo, J.A., Chen, S., Chouinard, S., Kelner, M., Hardiman, G., Belanger, A., and Tukey, R.H. (2008) Disruption of the Ugt1 locus in mice resembles human Crigler-Najjar type I disease. J. Biol. Chem. 283. 7901-7911

PubMedID: 18180294

Seki, E., Schwabe, R. F. (2014) Hepatic Inflammation and Fibrosis: Functional Links and Key Pathways. Hepatology. doi: 10.1002/hep.27332.

PubMedID: 25066777

Galijatovic, A., Beaton, D., Nguyen, N., Chen, S., Bonzo, J., Johnson, R., Maeda, S., Karin, M., Guengerich, F. P., Tukey, R. H. (2004) The human CYP1A1 gene is regulated in a developmental and tissue-specific fashion in transgenic mice. J Biol Chem. 279(23), 23969-76. doi: 10.1074/jbc.M400973200

PubMedID: 15037607

Suh, J.M., Jonker, J. W., Ahmadian, M., Goetz, R., Lackey, D., Osborn, O., Huang, Z., Liu, W., Yoshihara, E., van Dijk, T. H., Havinga, R., Fan, W., Yin, Y. Q., Yu, R. T., Liddle, C., Atkins, A. R., Olefsky, J. M., Mohammadi, M., Downes, M., Evans, R. M. (2014) Corrigendum: Endocrinization of FGF1 produces a neomorphic and potent insulin sensitizer. Nature. 520(7547):388. doi: 10.1038/nature14304.

PubMedID: 25739500

Yueh, M.F., and Tukey, R.H. (2007) Nrf2-Keap1 signaling pathway regulates human UGT1A1 expression in vitro and in transgenic UGT1 mice. J. Biol. Chem. 282: 8749-8758

PubMedID: 17259171

Maeda, S., Chang, L., Li, Z. W., Luo, J. L., Leffert, H., Karin, M. (2003) IKKbeta is required for prevention of apoptosis mediated by cell-bound but not by circulating TNFalpha. Immunity. 19(5), 725-37. doi: 10.1016/S1074-7613(03)00301-7.

PubMedID: 14614859
Liang, S., Zhong, Z., Seki, E. (2014)  Novel fate-tracing strategies show that hepatic stellate cells mediate fibrosis in vivo. astroenterology. 146(7), 1823-5. 
PubMedID: 24768331

Bonzo, J. A., Belanger, A., and Tukey, R. H. (2007) The role of chrysin and the Ah receptor in induction of the human UGT1A1 gene in vitro and in transgenic UGT1 mice. Hepatology. 45, 349-360.

PubMedID: 17256720

Machemer D. E. W., and Tukey R. H. (2005) The role of protein kinase C in regulation of TCDD-mediated CYP1A1 gene expression. Toxicol Sci. 87(1):27-37. doi: 10.1093/toxsci/kfi220.

PubMedID: 15947024

Chen, S., Beaton, D., Nguyen, N., Senekeo-Effenberger, K., Brace-Sinnokrak, E., Argikar, U., Remmel, R. P., Trottier, J., Barbier, O., Ritter, J., Tukey, R. H. (2005) Tissue-specific, inducible, and hormonal control of the human UDP-glucuronosyltranserase-1 (UGT1) locus. J Biol Chem. 280(45):37547-57. doi: 10.1074/jbc.M506683200.

PubMedID: 16155002

Li, Z. W., Omori, S. A., Labuda, T., Karin, M., Rickert, R. C. (2003) IKK beta is required for peripheral B cell survival and proliferation. J Immunol. 170(9), 4630-7. doi: 10.4049/jimmunol.170.9.4630.

PubMedID: 12707341

Senekeo-Effenberger, K., Chen, S., Yueh, M-F., Erace-Sinnokrak, E., Bonzo, J.A., Argikar, U., Kaeding, J., Trottier, T., Remmel, R.P., Ritter, J.K., Barbier, O., and Tukey, R.H. (2007) Expression of the human UGT1 locus in transgenic mice by 4-chloro-6-(2,3-xylidino)-2-pyrimidinylthioacetic acid (WY-14643) and implications on drug metabolism through peroxisome proliferator-activated receptor alpha activation. Drug Met. Disp. 35, 419-427.

PubMedID: 17151188

Bonzo, J. A., Chen, S., Galijatovic, A., Tukey, R. H. (2005) Arsenite inihibition of CYP1A1 induction by TCDD is independent of cell cycle arrest. Mol Pharmacol. 67(4):1247-56. doi: 10.1124/mol.104.006130.

PubMedID: 15630080

Chen, S., Nguyen, N., Tamura, K., Karin, M., Tukey, R. H. (2003) The role of the Ah receptor and p38 in benzo[a]pyrene-7,8-dihydrodiol and benzo[a]pyrene-7,8-dihydrodiol-9,10-epoxide-induced apoptosis. J Biol Chem. 278(21), 19526-33. doi: 10.1074/jbc.M300780200.

PubMedID: 12637498

Chen, S., Beaton, D., Nguyen, N., Senekeo-Effenberger, K., Brace-Sinnokrak, E., Argikar, U., Remmel, R. P., Trottier, J., Barbier, O., Ritter, J., Tukey, R. H. (2005) Tissue-specific, inducible, and hormonal control of the human UDP-glucuronosyltranserase-1 (UGT1) locus. J. Biol. Chem. 280, 37547-37557.

PubMedID: 16155002

Suh, J. M., Jonker, J. W., Ahmadian, M., Goetz, R., Lackey, D., Osborn, O., Huang, Z., Liu, W., Yoshihara, E., van Dijk, T. H., Havinga, R., Fan, W., Yin, Y. Q., Yu, R. T., Liddle, C., Atkins, A. R., Olefsky, J. M., Mohammadi, M., Downes, M., Evans, R. M. (2015) Corrigendum: Endocrinization of FGF1 produces a neomorphic and potent insulin sensitizer. Nature. 520(7547), 388. doi: 10.1038/nature14304.

PubMedID: 25739500

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