Core C: SRP Publications
Functional Genomics and Bioinformatics Laboratory


READ Ahmed I, Lee PC, Lill CM, Searles Nielsen S, Artaud F, Gallagher LG, Loriot MA, Mulot C, Nacfer M, Liu T, Biernacka JM, Armasu S, Anderson K, Farin FM, Lassen CF, Hansen J, Olsen JH, Bertram L, Maraganore DM, Checkoway H, Ritz B, Elbaz A.  Lack of replication of the GRIN2A-by-coffee interaction in Parkinson disease.  PLoS Genet. 2014;10:e1004788. PMCID: PMC4238979

READ Cole TB, Li W-F, Co AL, Hay AM, MacDonald JW, Bammler TK, Farin FM, Costa LG, Furlong CE. 2014. Repeated gestational exposure of mice to chlorpyrifos oxon is associated with paraoxonase 1 (PON1)-modulated effects in maternal and fetal tissues. Toxicol Sci 141(2):409-422. PMCID: PMC4271046

READ Searles Nielsen S, Checkoway H, Criswell S, Farin F, Racette B.  Inducible nitric oxide synthase gene methylation and parkinsonism in manganese-exposed welders. Occup Environ Med. 2014;71 Suppl 1:A32. PMID: 25018322

READ Searles Nielsen S, Checkoway H, Zhang J, Hofmann JN, Keifer MC, Paulsen M, Farin FM, Cook TJ, Simpson CD.  Blood α-synuclein in agricultural pesticide handlers in central Washington State.  Environ Res. 2015 Jan;136:75-81.  PMID: 25460623.

READ Shi M, Movius J, Dator R, Aro P, Zhao Y, Pan C, Lin X, Bammler TK, Stewart T, Zabetian CP, Peskind ER, Hu SC, Quinn JF, Galasko DR, Zhang J. Cerebrospinal fluid peptides as potential Parkinson disease biomarkers: a staged pipeline for discovery and validation. Mol Cell Proteomics. 2015 Jan 2. PubMed PMID: 25556233

READ Woods JS, Heyer NJ, Russo JE, Martin MD, Pillai PB, Bammler TK, Farin FM. Genetic polymorphisms of catechol-O-methyltransferase modify the neurobehavioral effects of mercury in children. J Toxicol Environ Health A. 2014;77(6):293-312. PMCID: PMC3967503.


READ Searles Nielsen S, Bammler TK, Gallagher LG, Farin FM, Longstreth Jr WT, Franklin GM, Swanson PD, Checkoway H. Genotype and age at Parkinson disease diagnosis. International Journal of Molecular Epidemiology and Genetics, 2013, 4:61-9. PMCID:PMC3612455

READWang L, Bammler TK, Beyer RP, Gallagher EP. Copper-Induced Deregulation of microRNA Expression in the Zebrafish Olfactory System. Environ Sci Technol. 2013; 47:7466-74. PMID:23745839


READ Doronin K, Flatt JW, Di Paolo NC, Khare R, Kalyuzhniy O, Acchione M, Sumida JP, Ohto U, Shimizu T, Akashi-Takamura S, Miyake K, MacDonald JW, Bammler TK, Beyer RP, Farin FM, Stewart PL, Shayakhmetov DM. Coagulation factor X activates innate immunity to human species C adenovirus. Science. 2012 Nov 9;338(6108):795-8. PMID: 23019612 NIHMSID# 415059

READ Lefebvre KA, Frame ER, Gulland F, Hansen JD, Kendrick PS, Beyer RP, Bammler TK, Farin FM, Hiolski EM, Smith DR, Marcinek DJ. A novel antibody-based biomarker for chronic algal toxin exposure and sub-acute neurotoxicity. PLoS One. 2012; 7:e36213. PMID: 22567140; PMCID: PMC3342169

READMata IF, Checkoway H, Hutter CM, Samii A, Roberts JW, Kim HM, Agarwal P, Pastor P, Yearout D, Martinez E, Farin FM, Wan JY, Edwards KL, Zabetian CP, et al. Common variation in the LRRK2 gene is a risk factor for Parkinson's disease. Mov Disord. 2012 Oct 31. PMCID: PMC3536918

Searles Nielsen S, Checkoway H, Butler RA, Nelson HH, Farin FM, Longstreth WT Jr, Franklin GM, Swanson PD, Kelsey KT. LINE-1 DNA Methylation, Smoking and Risk of Parkinson’s Disease. J Parkinsons Dis. 2012; 2:303-308. NIHMSID# 457710

READ Thompson CK, Meitzen J, Replogle K, Drnevich J, Lent KL, Wissman AM, Farin FM, Bammler TK, Beyer RP, Clayton DF, Perkel DJ, Brenowitz EA. Seasonal changes in patterns of gene expression in avian song control brain regions. PLoS One. 2012;7:e35119. PMCID: PMC3329558.


READ Cole TB, Beyer RP, Bammler TK, Park SS, Farin FM, Costa LG, Furlong CE. Repeated developmental exposure of mice to chlorpyrifos oxon is associated with paraoxonase 1 (PON1)-modulated effects on cerebellar gene expression. Toxicol Sci. 2011 Sep;123(1):155-69. PMCID: PMC3164442.

READ Juul SE, Beyer RP, Bammler TK, Farin FM, Gleason CA. Effects of neonatal stress and morphine on murine hippocampal gene expression. Pediatr Res. 2011; 69:285-92. PMCID: PMC3085998.

READ Kisby GE, Fry RC, Lasarev MR, Bammler TK, Beyer RP, Churchwell M, Doerge DR, Meira LB, Palmer VS, Ramos-Crawford AL, Ren X, Sullivan RC, Kavanagh TJ, Samson LD, Zarbl H, Spencer PS. The cycad genotoxin MAM modulates brain cellular pathways involved in neurodegenerative disease and cancer in a DNA damage-linked manner. PLoS One. 2011;6:e20911. PMCID: PMC3121718

READ Tilton F, Tilton S, Stapleton P, Bammler T, Beyer R, Scholz N, Gallagher E. 2011. Transcriptional impact on organophosphate and metal mixtures on olfaction: Copper dominates the chlorpyrifos-induced response in adult zebrafish. Aquatic Toxicology. 2011 Apr;102(3-4):205-15. PMID: 21356183. NIHMSID# 263060

READ Tilton FA, Bammler TK, Gallagher EP. Swimming impairment and acetylcholinesterase inhibition in zebrafish exposed to copper or chlorpyrifos separately, or as mixtures. Comp Biochem Physiol C Toxicol Pharmacol. 2011 Jan;153(1):9-16. PMCID: PMC3034093.


READBedogni F, Hodge RD, Elsen GE, Nelson BR, Daza RA, Beyer RP, Bammler TK, Rubenstein JL, Hevner RF. Tbr1 regulates regional and laminar identity of postmitotic neurons in developing neocortex. Proc Natl Acad Sci U S A. 2010; 107:13129-34. PMCID: PMC2919950

READ Caudle WM, Bammler TK, Lin Y, Pan S, Zhang J. Using ‘omics’ to define pathogenesis and biomarkers of Parkinosn’s disease. Expert Rev Neurother. 2010,10:925-42. PMCID: PMC2913169

READKang, J. W., Wilkerson, H-W, Farin, F.M., Bammler, T.K., Beyer, R.P., Strand, S. E., and Doty, S.L. Mammalian cytochrome CYP2E1 triggered differential gene regulation in response to trichloroethylene (TCE) in transgenic poplar. Functional & Integrative Genomics 2010 Aug; 10(3):417-424.


READ Hofmann JN, Furlong CE, Farin FM, et al. Serum cholinesterase inhibition in relation to paraoxonase (PON1) status among organophosphate-exposed agricultural pesticide handlers. EHP 2009 2009 Sep;117(9):1402-8.

READ James, C. A., and Strand, S. E. Phytoremediation of Small Organic Contaminants Using Transgenic Plants. Current Opinion in Biotechnology. Curr Opin Biotechnol 2009 Apr;20(2):237-41.

READ Giordano G, Li L, White CC, Farin FM, Wilkerson HW, Kavanagh TJ, Costa LG. Muscarinic receptors prevent oxidative stress-mediated apoptosis induced by domoic acid in mouse cerebellar granule cells. J Neurochem. 2009 Apr;109(2):525-38.

READ Lefebvre KA, Bammler TK, Farin FM, Gallagher EP, et al. Gene expression profiles in zebrafish brain after acute exposure to domoic acid at symptomatic and asymptomatic doses. Tox Sci 2009 Jan;107(1):65-77.

READ Heyer NJ, Farin FM, Woods JS, et al. COMT Val158Met Functional Polymorphism, Dental Mercury Exposure, and Self-reported Symptoms and Mood. J Toxicol Environ Health A. 2009;72(9):599-609.


READ Gallagher, E., LaVire, H., Stapleton, P., Bammler, T, Beyer, D., and F. Farin. 2008. Expression profiling of hepatic genes in smolting and adult coho salmon (Onchorhynchus kisutch). Environmental Research. Mar;106(3):365-78

READ Gorden NT, Arts HH, Parisi MA, Coene KLM, Letteboer SJF, van Beersum SEC, Mans DA, Hikida A, Eckert M, Knutzen D, Alswaid AF, Özyurek H, Dibooglu S, Otto EA, Liu Y, Davis EE, Hutter CM, Bammler TK, Farin FM, Dorschner M, Topçu M, Zackai EH, Rosenthal P, Owens KN, Katsanis N, Vincent JB, Hildebrandt F, Rubel EW, 16, Raible DW, Knoers NVAM, Chance PF, Roepman R, Moens CB, Glass IA, Doherty D. CC2D2A is mutated in Joubert syndrome and interacts with the ciliopathy-associated, basal body protein CEP290. Am J Hum Gen. 2008, 83:559-71. PMCID: PMC2668034

READ Tilton F, Tilton SC, Bammler TK, Beyer RP, Farin F, Stapleton PL, and. Gallagher EP. Transcriptional Biomarkers and Mechanisms of Copper-Induced Olfactory Injury in zebrafish. Environ. Sci. Technol. 2008, 42, 9404–9411. PMCID: PMC3321378

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