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Your Environment. Your Health.

Project Publications: University of California-Berkeley: Genetic Susceptibility to Superfund Chemicals

Superfund Research Program

Genetic Susceptibility to Superfund Chemicals

Project Leader: Martyn T. Smith
Co-Investigator: Luoping Zhang
Grant Number: P42ES004705
Funding Period: 2006-2017
View this project in the NIH Research Portfolio Online Reporting Tools (RePORT)

Learn More About the Grantee

Visit the grantee's eNewsletter page Visit the grantee's Twitter page Visit the grantee's Facebook page View the grantee's Factsheet(491KB)



  • Sobh A, Loguinov AV, Stornetta A, Balbo S, Tagmount A, Zhang L, Vulpe CD. 2019. Genome-wide CRISPR screening identifies the tumor suppressor candidate OVCA2 as a determinant of tolerance to acetaldehyde. Toxicol Sci 169:235-245. doi:10.1093/toxsci/kfz037 PMID:31059574 PMCID:PMC6484886
  • Sobh A, Loguinov AV, Yazici GN, Zeidan RS, Tagmount A, Hejazi NS, Hubbard AE, Zhang L, Vulpe CD. 2019. Functional profiling identifies determinants of arsenic trioxide cellular toxicity. Toxicol Sci 169:108-121. doi:10.1093/toxsci/kfz024 PMID:30815697 PMCID:PMC6484884


  • Hsu LI, Briggs F, Shao XR, Metayer C, Wiemels JL, Chokkalingam AP, Barcellos L. 2016. Pathway analysis of genome-wide association study in childhood leukemia among Hispanics. Cancer Epidemiol Biomarkers Prev 25(5):815-822. doi:10.1158/1055-9965.EPI-15-0528 PMID:26941364 PMCID:PMC4873450
  • Shen H, McHale CM, Haider SI, Jung C, Zhang S, Smith MT, Zhang L. 2016. Identification of genes that modulate susceptibility to formaldehyde and imatinib by functional genomic screening in human haploid KBM7 cells. Toxicol Sci 151(1):10-22. doi:10.1093/toxsci/kfw032 PMID:27008852 PMCID:PMC4914802
  • Walker D, Uppal K, Zhang L, Vermeulen R, Smith MT, Hu W, Purdue MP, Tang X, Reiss B, Kim S, Li L, Huang H, Pennell KD, Jones DP, Rothman N, Lan Q. 2016. High-resolution metabolomics of occupational exposure to trichloroethylene. Int J Epidemiol 45(5):1517-1527. doi:10.1093/ije/dyw218 PMID:27707868 PMCID:PMC5100622


  • Bailey H, Infante-Rivard C, Metayer C, Clavel J, Lightfoot TJ, Kaatsch P, Roman E, Magnani C, Spector LG, Petridou E, Milne E, Dockerty JD, Miligi L, Armstrong BK, Rudant J, Fritschi L, Simpson J, Zhang L, Rondelli R, Baka M, Orsi L, Moschovi M, Kang AY, Schuz J. 2015. Home pesticide exposures and risk of childhood leukemia: findings from the childhood leukemia international consortium. Int J Cancer 137(11):2644-2663. doi:10.1002/ijc.29631 PMID:26061779 PMCID:PMC4572913
  • Ji Z, McHale CM, Bersonda J, Tung J, Smith MT, Zhang L. 2015. Induction of centrosome amplification by formaldehyde, but not hydroquinone, in human lymphoblastoid TK6 cells. Environ Mol Mutagen 56(6):535-544. doi:10.1002/em.21947 PMID:25821186
  • Shen H, McHale CM, Smith MT, Zhang L. 2015. Functional genomic screening approaches in mechanistic toxicology and potential future applications of CRISPR-Cas9. Mutat Res Rev Mutat Res 764:31-42. doi:10.1016/j.mrrev.2015.01.002 PMID:26041264 PMCID:PMC4456615
  • Whitehead TP, Havel C, Metayer C, Benowitz NL, Jacob P. 2015. Tobacco alkaloids and tobacco-specific nitrosamines in dust from homes of smokeless tobacco users, active smokers, and nontobacco users. Chem Res Toxicol 28(5):1007-1014. doi:10.1021/acs.chemrestox.5b00040 PMID:25794360 PMCID:PMC4827423
  • Zhang L, Samad A, Pombo-de-Oliveira MS, Scelo G, Smith MT, Feusner J, Wiemels JL, Metayer C. 2015. Global characteristics of childhood acute promyelocytic leukemia. Blood Rev 29(2):101-125. doi:10.1016/j.blre.2014.09.013 PMID:25445717 PMCID:PMC4379131



  • Dangleben NL, Skibola CF, Smith MT. 2013. Arsenic immunotoxicity: a review. Environ Health 12(1):73. doi:10.1186/1476-069x-12-73 PMID:24004508 PMCID:PMC3848751
  • Ferreccio Readi C, Smith AH, Duran V, Barlaro T, Benitez H, Valdes R, Aguirre J, Moore LE, Acevedo J, Vasquez M, Perez L, Yuan Y, Liaw J, Cantor KP, Steinmaus CM. 2013. Case-control study of arsenic in drinking water and kidney cancer in uniquely exposed Northern Chile. Am J Epidemiol 178(5):813-818. doi:10.1093/aje/kwt059 PMID:23764934 PMCID:PMC3817454
  • Gaytan BD, Loguinov AV, De La Rosa VY, Lerot J, Vulpe CD. 2013. Functional genomics indicates yeast requires Golgi/ER transport, chromatin remodeling, and DNA repair for low dose DMSO tolerance. Front Genet 4(154):doi:10.3389/fgene.2013.00154 PMID:23964287 PMCID:PMC3741465
  • Gaytan BD, Loguinov AV, Lantz SR, Lerot J, Denslow ND, Vulpe CD. 2013. Functional profiling discovers the dieldrin organochlorinated pesticide affects leucine availability in yeast. Toxicol Sci 132(2):347-358. doi:10.1093/toxsci/kft018 PMID:23358190 PMCID:PMC3595527
  • Gaytan BD, Loguinov AV, Penate X, Lerot J, Chavez S, Denslow ND, Vulpe CD. 2013. A genome-wide screen identifies yeast genes required for tolerance to technical toxaphene, an organochlorinated pesticide mixture. PLoS One 8(11):e81253. doi:10.1371/journal.pone.0081253 PMID:24260565 PMCID:PMC3832591
  • Herceg Z, Lambert MP, van Veldhoven K, Demetriou C, Vineis P, Smith MT, Straif K, Wild CP. 2013. Towards incorporating epigenetic mechanisms into carcinogen identification and evaluation. Carcinogenesis 34(9):1955-1967. doi:10.1093/carcin/bgt212 PMID:23749751 PMCID:PMC3765050
  • Hosgood H, Zhang L, Tang X, Vermeulen R, Hao Z, Shen M, Qiu C, Ge Y, Hua M, Ji Z, Li S, Xiong J, Reiss B, Liu S, Xin KX, Azuma M, Xie Y, Freeman LB, Ruan X, Guo W, Galvan N, Blair AE, Li L, Huang H, Smith MT, Rothman N, Lan Q. 2013. Occupational exposure to formaldehyde and alterations in lymphocyte subsets. Am J Ind Med 56:252-257. doi:10.1002/ajim.22088 PMID:22767408 PMCID:PMC3493854
  • McHale CM, Zhang L, Thomas R, Smith MT. 2013. Analysis of the transcriptome in molecular epidemiology studies. Environ Mol Mutagen 54(7):500-517. doi:10.1002/em.21798 PMID:23907930 PMCID:PMC5142298
  • Metayer C, Zhang L, Wiemels JL, Bartley K, Schiffman J, Ma X, Aldrich MC, Chang JS, Selvin S, Fu CH, Ducore J, Smith MT, Buffler PA. 2013. Tobacco smoke exposure and the risk of childhood acute lymphoblastic and Myeloid Leukemias by cytogenetic subtype. Cancer Epidemiol Biomarkers Prev 22(9):1600. doi:10.1158/1055-9965.epi-13-0350 PMID:23853208 PMCID:PMC3769478
  • Shuga J, Zeng Y, Novak R, Lan Q, Tang X, Rothman N, Vermeulen R, Li L, Hubbard AE, Zhang L, Mathies RA, Smith MT. 2013. Single molecule quantitation and sequencing of rare translocations using microfluidic nested digital PCR. Nucleic Acids Res 41(16):e159. doi:10.1093/nar/gkt613 PMID:23873959 PMCID:PMC3763562
  • Smith AH, Yunus M, Khan A, Ercumen A, Yuan Y, Smith M, Liaw J, Balmes JR, von Ehrenstein OS, Raqib R, Kalman DA, Alam DS, Streatfield PK, Steinmaus CM. 2013. Chronic respiratory symptoms in children following in utero and early life exposure to arsenic in drinking water in Bangladesh. Int J Epidemiol 42(4):1077-1086. doi:10.1093/ije/dyt120 PMID:24062297 PMCID:PMC3781005
  • Steinmaus CM, Ferreccio Readi C, Romo JA, Yuan Y, Cortes S, Marshall G, Moore LE, Balmes JR, Liaw J, Golden T, Smith AH. 2013. Drinking water arsenic in Northern Chile: high cancer risks 40 years after exposure cessation. Cancer Epidemiol Biomarkers Prev 22:623-630. doi:10.1158/1055-9965.epi-12-1190 PMID:23355602 PMCID:PMC3848421
  • Zhang L, Bassig BA, Mora JL, Vermeulen R, Ge Y, Curry JD, Hu W, Shen M, Qiu C, Ji Z, Reiss B, McHale CM, Liu S, Guo W, Purdue MP, Yue F, Li L, Smith MT, Huang H, Tang X, Rothman N, Lan Q. 2013. Alterations in serum immunoglobulin levels in workers occupationally exposure to trichloroethylene. Carcinogenesis 34(4):799-802. doi:10.1093/carcin/bgs403 PMID:23276795 PMCID:PMC3616671


  • Fromowitz M, Shuga J, Wlassowsky AY, Ji Z, North M, Vulpe CD, Smith MT, Zhang L. 2012. Bone marrow genotoxicity of 2,5-dimethylfuran, a green biofuel candidate. Environ Mol Mutagen 53:488-491. doi:10.1002/em.21707 PMID:22730236
  • North M, Steffen J, Loguinov AV, Zimmerman GR, Vulpe CD, Eide DJ. 2012. Genome-wide functional profiling identifies genes and processes important for zinc-limited growth of Saccharomyces Cerevisiae. PLoS Genet 8(6):e1002699. doi:10.1371/journal.pgen.1002699 PMID:22685415 PMCID:PMC3369956
  • Vermeulen R, Zhang L, Spierenburg A, Bonventre JV, Reiss B, Shen M, Smith MT, Qiu C, Ge Y, Ji Z, Xiong J, He J, Hao Z, Liu S, Xie Y, Yue F, Guo W, Purdue MP, Freeman LB, Sabbisetti V, Li L, Huang H, Rothman N, Lan Q, Tang X. 2012. Elevated urinary levels of kidney injury molecule-1 among Chinese factory workers exposed to trichloroethylene. Carcinogenesis 33(8):1538-1541. doi:10.1093/carcin/bgs191 PMID:22665366 PMCID:PMC3499056


  • Chu F, Ren X, Chasse A, Hickman T, Zhang L, Yuh J, Smith MT, Burlingame AL. 2011. Quantitative mass spectrometry reveals the epigenome as a target of arsenic. Chem Biol Interact 192(1-2):113-117. doi:10.1016/j.cbi.2010.11.003 PMID:21075096 PMCID:PMC4360996
  • Doperalski NJ, Martyniuk CJ, Prucha MS, Kroll KJ, Denslow ND, Barber DS. 2011. Cloning and expression of the translocator protein (18 kDa), voltage-dependent anion channel, and diazepam binding inhibitor in the gonad of largemouth bass (Micropterus salmoides) across the reproductive cycle. Gen Comp Endocrinol 173(1):86-95. doi:10.1016/j.ygcen.2011.04.027 PMID:21600210 PMCID:PMC3144257 (Completed with ARRA Funds)
  • Martyniuk CJ, Spade DJ, Blum JL, Kroll KJ, Denslow ND. 2011. Methoxychlor affects multiple hormone signaling pathways in the largemouth bass (Micropterus salmoides) liver. Aquat Toxicol 101(3-4):483-492. doi:10.1016/j.aquatox.2010.12.002 PMID:21276474 PMCID:PMC3222593
  • North M, Tandon VJ, Thomas R, Loguinov AV, Gerlovina I, Hubbard AE, Zhang L, Smith MT, Vulpe CD. 2011. Genome-wide functional profiling reveals genes required for tolerance to benzene metabolites in yeast. PLoS One 6(8):e24205. doi:10.1371/journal.pone.0024205 PMID:21912624 PMCID:PMC3166172
  • Ren X, Aleshin M, Jo WJ, Kalman DA, Vulpe CD, Smith MT, Zhang L. 2011. Involvement of N-6 adenine-specific DNA methyltransferase 1 (N6AMT1) in arsenic biomethylation and its role in arsenic-induced toxicity. Environ Health Perspect 119:771-777. doi:10.1289/ehp.1002733 PMID:21193388 PMCID:PMC3114810
  • Ren X, Lim S, Ji Z, Yuh J, Peng V, Smith MT, Zhang L. 2011. Comparison of proliferation and genomic instability responses to WRN silencing in hematopoietic HL60 and TK6 cells. PLoS One 6:e14546. doi:10.1371/journal.pone.0014546 PMID:21267443 PMCID:PMC3022623
  • Ren X, McHale CM, Skibola CF, Smith AH, Smith MT, Zhang L. 2011. An emerging role for epigenetic dysregulation in arsenic toxicity 
and carcinogenesis. Environ Health Perspect 119(1):11-19. doi:10.1289/ehp.1002114 PMID:20682481 PMCID:PMC3018488


  • Ji Z, Zhang L, Peng V, Ren X, McHale CM, Smith MT. 2010. A comparison of the cytogenetic alterations and global DNA hypomethylation induced by the benzene metabolite, hydroquinone, with those induced by melphalan and etoposide. Leukemia 24(5):986-991. doi:10.1038/leu.2010.43 PMID:20339439 PMCID:PMC4353491
  • Kocerha RJ, Prucha MS, Kroll KJ, Steinhilber D, Denslow ND. 2010. Regulation of steroidogenic acute regulatory protein transcription in largemouth bass by orphan nuclear receptor signaling pathways. Endocrinology 151(1):341-349. doi:10.1210/en.2009-0551 PMID:19906818 PMCID:PMC2803149 (Completed with ARRA Funds)
  • Martyniuk CJ, Feswick A, Spade DJ, Kroll KJ, Barber DS, Denslow ND. 2010. Effects of acute dieldrin exposure on neurotransmitters and global gene transcription in largemouth bass (Micropterus salmoides) hypothalamus. Neurotoxicology 31(4):356-366. doi:10.1016/j.neuro.2010.04.008 PMID:20438755 PMCID:PMC2882520
  • Martyniuk CJ, Kroll KJ, Doperalski NJ, Barber DS, Denslow ND. 2010. Environmentally relevant exposure to 17 alpha-ethinylestradiol affects the telencephalic proteome of male fathead minnows. Aquat Toxicol 98(4):344-353. doi:10.1016/j.aquatox.2010.03.007 PMID:20381887 PMCID:PMC2874657 (Completed with ARRA Funds)
  • Martyniuk CJ, Kroll KJ, Doperalski NJ, Barber DS, Denslow ND. 2010. Genomic and proteomic responses to environmentally relevant exposures to dieldrin: Indicators of neurodegeneration?. Toxicol Sci 117(1):190-199. doi:10.1093/toxsci/kfq192 PMID:20584760 PMCID:PMC2923291 (Completed with ARRA Funds)
  • North M, Vulpe CD. 2010. Functional toxicogenomics: mechanism-centered toxicology. Int J Mol Sci 11:4796-4813. doi:10.3390/ijms11124796 PMID:21614174 PMCID:PMC3100848
  • Popesku J, Martyniuk CJ, Denslow ND, Trudeau V. 2010. Rapid dopaminergic modulation of the fish hypothalamic transcriptome and proteome. PLoS One 5:E12338. doi:10.1371/journal.pone.0012338 PMID:20808832 PMCID:PMC2924890 (Completed with ARRA Funds)
  • Xing C, Marchetti F, Li G, Weldon RH, Kurtovich E, Young SS, Schmid TE, Zhang L, Rappaport SM, Waidyanatha S, Wyrobek AJ, Eskenazi B. 2010. Benzene exposure near the US permissible limit is associated with sperm aneuploidy. Environ Health Perspect 118:833-839. doi:10.1289/ehp.0901531 PMID:20418200 PMCID:PMC2898861


  • Ji Z, Zhang L, Guo W, McHale CM, Smith MT. 2009. The benzene metabolite, hydroquinone and etoposide both induce endoreduplication in human lymphoblastoid TK6 cells. Mutagenesis 24(4):367-372. doi:10.1093/mutage/gep018 PMID:19491217 PMCID:PMC2701990
  • Jo WJ, Kim JH, Oh E, Jaramillo D, Holman P, Loguinov AV, Arkin AP, Nislow C, Giaever G, Vulpe CD. 2009. Novel insights into iron metabolism by integrating deletome and transcriptome analysis in an iron deficiency model of the yeast Saccharomyces cerevisiae. Genomics 10:130. doi:10.1186/1471-2164-10-130 PMID:19321002 PMCID:PMC2669097
  • Jo WJ, Loguinov AV, Wintz H, Chang M, Smith AH, Vulpe CD, Kalman DA, Zhang L, Smith MT. 2009. Comparative functional genomic analysis identifies distinct and overlapping sets of genes required for resistance to monomethylarsonous acid (MMAIII) and arsenite (AsIII) in yeast. Toxicol Sci 111(2):424-436. doi:10.1093/toxsci/kfp162 PMID:19635755 PMCID:PMC2742584
  • Jo WJ, Ren X, Chu F, Aleshin M, Wintz H, Burlingame AL, Smith MT, Vulpe CD, Zhang L. 2009. Acetylated H4K16 by MYST1 protects UROtsa cells from arsenic toxicity and is decreased following chronic arsenic exposure. Toxicol Appl Pharmacol 241(3):294-302. doi:10.1016/j.taap.2009.08.027 PMID:19732783 PMCID:PMC2784148
  • Lan Q, Zhang L, Shen M, Jo WJ, Vermeulen R, Li G, Vulpe CD, Lim S, Ren X, Rappaport SM, Berndt SI, Yeager M, Yuenger J, Hayes RB, Linet MS, Yin S, Chanock SJ, Smith MT, Rothman N. 2009. Large-scale evaluation of candidate genes identifies associations between DNA repair and genomic maintenance and development of benzene hematotoxicity. Carcinogenesis 30(1):50-58. doi:10.1093/carcin/bgn249 PMID:18978339 PMCID:PMC2639030
  • Martyniuk CJ, Alvarez S, McClung S, Villeneuve DL, Ankley GT, Denslow ND. 2009. Quantitative proteomic profiles of androgen receptor signaling in the liver of fathead minnows (Pimephales promelas). J Proteome Res 8(5):2186-2200. doi:10.1021/pr800627n PMID:19267455 (Completed with ARRA Funds)
  • Martyniuk CJ, Kroll KJ, Porak WF, Steward C, Grier HJ, Denslow ND. 2009. Seasonal relationship between gonadotropin, growth hormone, and estrogen receptor mRNA expression in the pituitary gland of largemouth bass. Gen Comp Endocrinol 163(3):306-317. doi:10.1016/j.ygcen.2009.04.028 PMID:19416730 PMCID:PMC4188826 (Completed with ARRA Funds)
  • Martyniuk CJ, Sanchez BC, Szabo N, Denslow ND, Sepulveda MS. 2009. Aquatic contaminants alter genes involved in neurotransmitter synthesis and gonadotropin release in largemouth bass. Aquat Toxicol 95(1):1-9. doi:10.1016/j.aquatox.2009.06.009 PMID:19781795 (Completed with ARRA Funds)
  • Ren X, Lim S, Smith MT, Zhang L. 2009. Werner syndrome protein, WRN, protects cells from DNA damage induced by the benzene metabolite hydroquinone. Toxicol Sci 107(2):367-375. doi:10.1093/toxsci/kfn254 PMID:19064679 PMCID:PMC2639759
  • Scelo G, Metayer C, Zhang L, Wiemels JL, Aldrich MC, Selvin S, Month S, Smith MT, Buffler PA. 2009. Household exposure to paint and petroleum solvents, chromosomal translocations, and the risk of childhood leukemia. Environ Health Perspect 117(1):133-139. PMID:19165400


  • Blum JL, James MO, Stuchal L, Denslow ND. 2008. Stimulation of transactivation of the largemouth bass estrogen receptors alpha, beta-a, and beta-b by methoxychlor and its mono- and bis-demethylated metabolites in HepG2 cells. Psychiatr Pol 108(1-2):55-63. PMID:17949972 (Completed with ARRA Funds)
  • Blum JL, Nyagode BA, James MO, Denslow ND. 2008. Effects of the pesticide methoxychlor on gene expression in the liver and testes of the male largemouth bass (Micropterus salmoides). Aquat Toxicol 86(4):459-469. doi:10.1016/j.aquatox.2007.12.008 PMID:18279978 PMCID:PMC3004021 (Completed with ARRA Funds)
  • Galvan N, Lim S, Zmugg S, Smith MT, Zhang L. 2008. Depletion of WRN enhances DNA damage in HeLa cells exposed to the benzene metabolite, hydroquinone. Mutat Res 649(1-2):54-61. doi:10.1016/j.mrgentox.2007.07.011 PMID:17875398 PMCID:PMC3461953
  • Garcia-Reyero N, Adelman I, Liu L, Denslow ND. 2008. Gene expression profiles of fathead minnows exposed to surface waters above and below a sewage treatment plant in Minnesota. Mar Environ Res 66(1):134-136. doi:10.1016/j.marenvres.2008.02.073 PMID:18417205 PMCID:PMC2531227 (Completed with ARRA Funds)
  • Hegedus CM, Skibola CF, Warner M, Skibola DR, Zhang L, Steinmaus CM, Smith AH, Smith MT, Moore LE, Alexander D, Lim S, Dangleben NL, Clark M, Pfeiffer RM. 2008. Decreased urinary beta-defensin-1 expression as a biomarker of response to arsenic. Toxicol Sci 106(1):74-82. doi:10.1093/toxsci/kfn104 PMID:18511430 PMCID:PMC2563143


  • Barber DS, McNally AJ, Garcia-Reyero N, Denslow ND. 2007. Exposure to p,p'-DDE or dieldrin during the reproductive season alters hepatic CYP expression in largemouth bass (Micropterus salmoides). Aquat Toxicol 81(1):27-35. doi:10.1016/j.aquatox.2006.10.008 PMID:17145087 PMCID:PMC1847780 (Completed with ARRA Funds)
  • Denslow ND, Garcia-Reyero N, Barber DS. 2007. Fish 'n' chips: the use of microarrays for aquatic toxicology. Mol Biosyst 3(3):172-177. doi:10.1039/b612802p PMID:17308663 PMCID:PMC2259425 (Completed with ARRA Funds)
  • Sabo-Attwood TL, Blum JL, Kroll KJ, Patel V, Birkholz D, Szabo N, Fisher SZ, McKenna R, Campbell-Thompson M, Denslow ND. 2007. Distinct expression and activity profiles of largemouth bass (Micropterus salmoides) estrogen receptors in response to estradiol and nonylphenol. J Mol Endocrinol 39(4):223-237. doi:10.1677/JME-07-0038 PMID:17909263 (Completed with ARRA Funds)
  • Zhang L, Rothman N, Li G, Guo W, Yang W, Hubbard AE, Hayes RB, Yin S, Lu W, Smith MT. 2007. Aberrations in chromosomes associated with lymphoma and therapy-related leukemia in benzene-exposed workers. Environ Mol Mutagen 48(6):467-74. PMID:17584886


  • Ankley GT, Daston GP, Degitz SJ, Denslow ND, Hoke RA, Kennedy SW, Miracle AL, Perkins EJ, Snape J, Tillitt DE, Tyler DE, Versteeg D. 2006. Toxicogenomics in regulatory ecotoxicology. Environ Sci Technol 40(13):4055-4065. PMID:16856717 (Completed with ARRA Funds)
  • Garcia-Reyero N, Barber DS, Gross TS, Johnson KG, Sepúlveda MS, Szabo N, Denslow ND. 2006. Dietary exposure of largemouth bass to OCPs changes expression of genes important for reproduction. Aquat Toxicol 78(4):358-369. doi:10.1016/j.aquatox.2006.05.003 PMID:16765462 PMCID:PMC1892580 (Completed with ARRA Funds)
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