|A genetic basis for the variable effect of smoking/nicotine on Parkinson's disease.|
|Jump to Full Text|
|PMID: 23032990 Owner: NLM Status: Publisher|
|Prior studies have established an inverse association between cigarette smoking and the risk of developing Parkinson's disease (PD), and currently, the disease-modifying potential of the nicotine patch is being tested in clinical trials. To identify genes that interact with the effect of smoking/nicotine, we conducted genome-wide interaction studies in humans and in Drosophila. We identified SV2C, which encodes a synaptic-vesicle protein in PD-vulnerable substantia nigra (P=1 × 10(-7) for gene-smoking interaction on PD risk), and CG14691, which is predicted to encode a synaptic-vesicle protein in Drosophila (P=2 × 10(-11) for nicotine-paraquat interaction on gene expression). SV2C is biologically plausible because nicotine enhances the release of dopamine through synaptic vesicles, and PD is caused by the depletion of dopamine. Effect of smoking on PD varied by SV2C genotype from protective to neutral to harmful (P=5 × 10(-10)). Taken together, cross-validating evidence from humans and Drosophila suggests SV2C is involved in PD pathogenesis and it might be a useful marker for pharmacogenomics studies involving nicotine.The Pharmacogenomics Journal advance online publication, 2 October 2012; doi:10.1038/tpj.2012.38.|
|E M Hill-Burns; N Singh; P Ganguly; T H Hamza; J Montimurro; D M Kay; D Yearout; P Sheehan; K Frodey; J A McLear; M B Feany; S D Hanes; W J Wolfgang; C P Zabetian; S A Factor; H Payami|
|Type: JOURNAL ARTICLE Date: 2012-10-02|
|Title: The pharmacogenomics journal Volume: - ISSN: 1473-1150 ISO Abbreviation: Pharmacogenomics J. Publication Date: 2012 Oct|
|Created Date: 2012-10-3 Completed Date: - Revised Date: -|
Medline Journal Info:
|Nlm Unique ID: 101083949 Medline TA: Pharmacogenomics J Country: -|
|Languages: ENG Pagination: - Citation Subset: -|
|Division of Genetics, Wadsworth Center, New York State Department of Health, Albany, NY, USA.|
|APA/MLA Format Download EndNote Download BibTex|
Journal ID (nlm-journal-id): 101083949
Journal ID (pubmed-jr-id): 22416
Journal ID (nlm-ta): Pharmacogenomics J
Journal ID (iso-abbrev): Pharmacogenomics J.
nihms-submitted publication date: Day: 24 Month: 8 Year: 2012
Electronic publication date: Day: 02 Month: 10 Year: 2012
Print publication date: Month: 12 Year: 2013
pmc-release publication date: Day: 01 Month: 6 Year: 2014
Volume: 13 Issue: 6
E-location ID: 10.1038/tpj.2012.38
PubMed Id: 23032990
|A genetic basis for the variable effect of smoking/nicotine on Parkinson's disease|
|Erin M. Hill-Burns, Ph.D.1|
|Navjot Singh, Ph.D.1|
|Taye H. Hamza, Ph.D.1|
|Jennifer Montimurro, B.S., M.B.A.1|
|Denise M. Kay, Ph.D1|
|Dora Yearout, Ph.D.2|
|Patricia Sheehan, B.A.1|
|Julie A. Mclear, Ph.D.1|
|Mel B. Feany, Ph.D.3|
|Steven D. Hanes, Ph.D.1456|
|William J. Wolfgang, Ph.D.45|
|Cyrus P. Zabetian, M.D., M.S.2|
|Stewart A. Factor, D.O.7|
|Haydeh Payami, Ph.D.15|
1 Division of Genetics, Wadsworth Center, New York State Department of Health, Albany, NY, USA
2 VA Puget Sound Health Care System and Department of Neurology, University of Washington, Seattle, WA, USA
3 Department of Pathology, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA
4 Division of Infectious Disease Wadsworth Center, New York State Department of Health, Albany, NY, United States, USA
5 Department of Biomedical Science, School of Public Health, State University of New York, Albany, NY, USA
6 Department of Biochemistry and Molecular Biology, SUNY-Upstate Medical University, Syracuse, NY, USA
7 Department of Neurology, Emory University School of Medicine, Atlanta, GA, USA
|Correspondence: Corresponding author: Haydeh Payami Wadsworth Center, New York State Department of Health, 150 New Scotland Ave, NY, USA 12208. email@example.com and firstname.lastname@example.org Tel: (518) 486-4181 Mobile: (518) 221-0296 Fax: (518) 474-3181
PD is a progressive degenerative disorder of the central nervous system. Dopamine-producing neurons in the substantia nigra selectively degenerate, resulting in a drastic reduction in the brain dopamine levels. Dopamine is a neurotransmitter and can impact many functions including voluntary movement, cognition, mood, behavior and sleep, all of which are altered in PD. Current treatments are directed towards dopamine replacement. While they help with early motor difficulties, they do not slow the progression of the disease and are associated with several late complications. To date, none of the clinical trials for neuroprotective treatments of PD have succeeded. We suspect that the inability so far to account for genetic differences that affect drug response has been a hindrance to treatment trials.
Epidemiological studies have shown that caffeinated-coffee and cigarette-smoking are inversely associated with risk of developing PD 1, 2. Although neuroprotective effects of caffeine and nicotine have been demonstrated in animal models of PD 3, 4, there is controversy as to whether the inverse associations in humans signify true protective effects or a personality trait that renders those predisposed to PD to avoid habit forming behaviors 5. Previously, we identified GRIN2A as a novel gene for PD through a genome-wide interaction study with caffeine, and showed that the genetic association was specific to the risk of PD and not to the tendency for caffeine use 6. In the present study, we sought to identify genes that influence the effect of smoking on PD.
We conducted genome-wide studies in humans, searching for genes that interact with the effect of smoking, and in Drosophila, searching for genes whose expression was affected by the interaction between paraquat, which we used to induce parkinsonism in the fly, and nicotine, which we used to rescue the flies from paraquat toxicity. Several genetic and toxin animal models of parkinsonism are available. We chose the paraquat model in Drosophila because paraquat is an environmental risk factor for PD 7-9, and Drosophila is amenable to powerful genetic analyses. The paraquat fly model of parkinsonism is created by feeding paraquat to flies, which results in selective and progressive loss of dopaminergic neurons, motor abnormalities and shortened lifespan 10. Thus, in this model many of the phenotypic hallmarks of the human parkinsonism are recapitulated, and the significantly shortened life span provides a parkinsonism-associated phenotype that is amenable to rapid screening. The two experiments, conducted in humans and Drosophila, converged on a pair of homologous genes, CG14691 and SV2C, which encode a synaptic vesicle protein involved in release of dopamine.
All research participants gave informed consent as approved by the Institutional Review Boards of the participating institutions. Subjects were from NeuroGenetics Research Consortium (NGRC) 11. PD was diagnosed using standard criteria 12. Controls were self-reported as not having any neurologic disease. Subjects were classified as being an ever- or never-smoker, using the common definition of having smoked ≥ 100 cigarettes in the lifetime 2. All subjects were unrelated, Caucasian Americans of European ancestry, by self-report and confirmed by principal component (PC) analysis 11. DNA was extracted from whole blood and unamplified. The Illumina HumanOmni1-Quad_v1-0_B array was used for genotyping, achieving a call rate of 99.92% and 99.99% reproducibility. Details of genotyping procedures and quality control have been published 11. Every NGRC subject for whom genome-wide genotype and smoking data were available was included in the present study (1 600 persons with PD and 1 506 without PD; see Table S1).
Genotypes in the NGRC dataset had been previously cleaned for GWAS 11, but since we used only subjects who had smoking data, we rechecked all single nucleotide polymorphisms (SNPs) and included only those that had a minor allele frequency (MAF) ≥ 0.01 in the subset of data used here. This yielded 811 597 genotyped SNPs. Smoking was treated as a binary variable as ever- or never-smoked at least 100 cigarettes in the life-time. We tested SNP*smoking interaction using logistic regression and adjusting for four covariates that associate with PD risk in the NGRC dataset; 11 namely, PC1 and PC2, sex, and age at blood draw. We used PLINK software version 1.07 13.
Haplotype blocks were constructed using Haploview 14. Independence of SNPs was tested using step-wise conditional analysis 15, 16 performed in R version 2.14.1. Association of SV2C with smoking was tested in R using logistic regression and adjusting for sex. A copy number variation (CNV) exists in SV2C. Using the PennCNV software 17, we detected 4 cases and 4 controls with a CNV in SV2C (all were duplications). The detected CNV ranged from 6kb to 20kb, and were all contained in intron 2 which is downstream to and does not overlap with the region that exhibits evidence for interaction with smoking.
All experiments were conducted with D. melanogaster w1118 females (Bloomington Drosophila Stock Center) kept at consistent conditions at 25°C, 55% humidity, and ambient light. Flies were collected within 24 hrs after eclosion, placed on media with or without nicotine for eight or ten days, and then placed on food with or without paraquat while continuing on nicotine at the dose they were pretreated on. Flies were transferred to new vials every other day. Nicotine ([-]–Nicotine in PESTANAL, Sigma-Aldrich) and paraquat (Methyl viologen dichloride hydrate, Sigma-Aldrich) were dissolved in dH2O at stock concentrations of 50mg/ml and 1M, respectively. These solutions were prepared fresh before each batch of media preparation and were added to warmed, liquefied standard fly food (prepared with agar, cornmeal, sucrose and yeast) and mixed thoroughly prior to pouring into vials. Food was prepared fresh at least monthly.
Three sets of experiments were conducted: a pilot study, a large-scale survival experiment, and a gene expression study. For the pilot study, flies were pretreated with 0, 0.05, 0.1, 0.2, or 0.4 mg/ml of nicotine for eight days and then transferred to food containing 0, 2.5, 5, or 10 mM paraquat while continuing on nicotine at the dose they were pretreated on. For each nicotine-paraquat dose combination, we had six vials each with 30 flies for a total of 180 flies. The number of dead flies was counted daily until nearly all flies were dead (Figure S1).
For the full experiment we set up 420 flies (14 vials each containing 30 flies) for each dose combination of 0, 0.01, 0.05, 0.1, 0.2, 0.4 mg/ml for nicotine pretreatment for eight days followed with addition of 0 or 5 mM paraquat. We did not pursue paraquat at 2.5 mM or 10 mM. 2.5 mM paraquat was associated with high vial-to-vial variability in survival times. At 10 mM, nicotine did not have a notable effect on survival. Flies were followed according to the same protocol, counting dead flies daily until all were dead. Survival data were plotted using Kaplan Meier survival analysis 18, mean and median survival times were calculated, and the differences between the survival curves were tested using log rank statistics in SPSS (Figure S2).
For gene expression study, we had four dose combinations, each conducted in triplicate, at the same time and under the same conditions. 30 flies per vial were pretreated with 0 or 0.1 mg/ml nicotine for ten days and then co-treated with 0 or 5 mM of paraquat for six days. At the end of the treatment period, heads were dissected from 20 flies per vial and frozen at -80°C for up to a month. RNA was extracted from each sample using TriReagent and its provided protocol, and cleaned using Qiagen RNeasy Cleanup kit and the associated protocol. RNA was stored at -80°C for approximately two months. Affymetrix GeneChip Drosophila Genome 2.0 arrays were used for genome-wide quantification of transcript abundance. Expression data were analyzed using Bioconductor version 2.9 19 packages in R version 2.14.1. Raw signal data were examined for signs of RNA degradation using AffyRNAdeg implemented in Bioconductor, and for inconsistencies in overall probe intensity by visually inspecting log(intensity) density plots. One replicate of the paraquat-only treatment was found to be an outlier and excluded from data analysis (Figure S3). Data were normalized using the GCRMA 20 algorithm including quantile normalization, pmonly correction, and median polish summarization. Statistical interaction between nicotine and paraquat on gene expression (specified as log2(signal)) was tested using the linear model implemented in limma 21. Expression differences were tested for 18 954 transcripts. Microarray data P-values were corrected using multiple testing adjustment 22 included in the limma package.
Drosophila and Human studies, independently, revealed a pair of homologous genes as the most significant signal for interaction with nicotine and smoking, respectively. We present the results of the Drosophila study first because the signal passed the genome-wide significance threshold for discovery. The human study was highly significant as corroborating evidence for validation.
It has previously been established that reduced lifespan is a part of the paraquat-induced parkinsonism phenotype 10. Consistent with this notion, we found that paraquat shortened flies’ lifespan by 63% (P=9×10-168). When co-treated with nicotine, nicotine improved survival for paraquat-treated flies in a dose-dependent manner by up to 25% (P=2×10-23). A beneficial effect of nicotine on survival was evident in both paraquat-treated (P=1×10-5) and untreated (P=4×10-3) flies, up to 0.2 mg/ml nicotine. However, at high dose (0.4 mg/ml), nicotine became toxic for flies that were not exposed to paraquat causing a 21% decline in median survival (P=1×10-17), though it continued to extend the lifespan of paraquat-treated flies up to 25% (P=2×10-23). These results, detailed in Table 1, Figure 1, and Figure S2, demonstrate successful construction of a nicotine-paraquat model in Drosophila. Furthermore, they reaffirm that nicotine can be protective against paraquat toxicity.
Test of statistical interaction between paraquat and nicotine on 18 954 transcripts gave a very strong signal for CG14691 (PInteraction=2×10-11, adjusted for multiple testing PInteraction=4×10-7), followed by marginal signals for skpB (PInteraction=1×10-6, adjusted PInteraction=0.01) and CG1885 (PInteraction=5×10-6, adjusted PInteraction=0.03). Figure 2 shows that compared to untreated flies, paraquat-treated flies had a modest (8%) but highly significant (P=5×10-8) rise in CG14691 expression, whereas flies that were treated with nicotine+paraquat or nicotine alone were similar to untreated flies (P=1.0).
(http://flybase.org/reports/FBgn0037829.html). Genome comparison analysis revealed that the Drosophila CG14691 is orthologous to the SV2A/SV2B/SV2C family of synaptic vesicle proteins in humans 23. The next step was to look for evidence of interaction between SV2 genes and the protective effect of smoking on PD in humans.
As depicted in the Manhattan plot of genome-wide interaction with smoking (Figure 3), none of the SNPs achieved the genome-wide significance threshold of P<5×10-8. However, the highest peak was on chromosome 5 and mapped to the 5’ of the synaptic vesicle protein SV2C gene (Figure 3, Table S2). Although the significance of SV2C (P=2×10-6 for the top SNP and P=1×10-7 for the joint effect of two independent SNPs) did not meet genome-wide significance criteria for discovery, it surpassed the significance threshold for validation of a candidate gene that was discovered, at genome-wide significance, in Drosophila.
Eighteen SNPs spanning from ~90kb upstream in 5’ prime to intron 1 of SV2C achieved 10-3>PInteraction≥2×10-6 for interaction with smoking. Most of the SNPs were in moderate to strong linkage disequilibrium (LD) with each other, with correlation-coefficients (r2) ranging from 0.66 to 0.98, and formed one large haploblock (Figure 4). The top SNP, rs30196 (minor allele frequency (MAF) =0.46, PInteraction=2×10-6), was in this block. Another SNP, rs183766 (MAF=0.33, PInteraction=4×10-4), showed weak LD with the SNPs in the large block (r2=0.3-0.4). And finally, rs10214163 (MAF=0.21, PInteraction=4×10-4), which showed virtually no correlation with other SNPs (r2=0.01-0.06). When conditioned on rs30196*smoking interaction, the rs183766*smoking signal was abolished (PInteraction=0.51), but rs10214163*smoking remained significant (PInteraction=0.01). This analysis suggested that rs183766 was not an independent signal so we removed it from further consideration. There was no evidence for three-way interaction between rs30196, rs10214163 and smoking (P=0.71). Considered individually, rs30196 and rs10214163 yielded PInteraction=2×10-6 and PInteraction=4×10-4 for interaction with smoking (Figure 3, Table 2 top row); considered together in an additive two-SNP model (see below), the interaction test yielded PInteraction=1×10-7.
The following analyses were performed for rs30196 and rs10214163 individually and then jointly. We used the additive model throughout where genotypes are defined by the number of minor alleles (rs30196_A, rs10214163_C). For a single-SNP, the genotypic classes are 0, 1, 2. For two-SNPs, the genotypic classes are 0, 1, 2, 3 and 4 where 0 denotes homozygous for common allele at both SNP (CC-TT), 1 denotes presence of one minor allele at one or the other locus (CA–TT or CC–CT), 2 is having two minor alleles which could be homozygous at one locus (AA-TT or CC-CC) or heterozygous at both loci (CA-CT), 3 is having three minor alleles which must be homozygous at one locus and heterozygous at the other (AA-CT or CA-CC) and 4 is homozygous for minor alleles at both loci (AA-CC).
We tested whether SV2C was associated with smoking per se. The test was conducted in cases and controls combined. We found no evidence for association of smoking with rs30196 genotype (OR=1.02, P=0.70), rs10214163 genotype (OR=1.07, P=0.27) or the joint genotype of rs30196 and rs10214163 (OR=1.03, P=0.36). Therefore, the signal for SV2C-smoking interaction on PD risk (P=1×10-7) cannot be attributed to an association between the gene and the smoking habit.
We performed stratified analysis to see whether the evidence for interaction was uniform or varied across subtypes (Table 2). The evidence for interaction was robust across all disease-related strata (familial and sporadic PD, early and late onset, males and females), the four sites of data collection (Washington, Oregon, Georgia and New York), and the ethnic and geographic origin of the ancestors (Jewish vs. non-Jewish ancestry, and European country of origin).
Overall (ignoring genotype), smoking was associated with 19% risk reduction in our dataset (OR±SE=0.81±0.06). The evidence for interaction implies that the magnitude of risk reduction conferred by smoking varies by genotype and that the overall estimate (19%) is only an average for all genotypes combined. To gain an insight to genotype-specific effects, we stratified the data by genotype, tested the association of smoking with PD risk for each genotype separately, and then performed formal tests of heterogeneity to determine whether the genotypic differences were statistically significant. The effect of smoking on PD risk was significantly different across genotypes (PHeterogeneity=5×10-10, Table 3). The strongest protective effect was observed for individuals homozygous for the common alleles: OR(±SE)=0.52±0.08 for rs30196 _CC, OR=0.67±0.07 for rs10214163_TT, and OR=0.44±0.08 for being homozygous at both rs10214163_TT and rs30196 _CC. The protective effect of smoking waned with the increasing numbers of minor alleles from 56% risk reduction (P=2×10-6) for individuals homozygous for the common alleles, to 223% risk increase (P=0.04) for individuals homozygous for the minor alleles. The pattern was evident for rs30196 and rs10214163 individually and together (Table 3). When data were stratified by the site of data collection, Washington, Oregon and New York (but not Georgia, small N) exhibited similar effect sizes and directions indicating decreasing protection by increasing number of minor alleles (Table S3). There was no evidence for heterogeneity across the four sites (1.0≥P>0.42). Our data suggest that only a fraction of the population benefits from the protective effect of nicotine, and that this group can be identified by genotyping SV2C.
We set out to find genes that modulate the effect of smoking on PD risk reduction, with the goal of carrying them forward as markers into upcoming clinical trials of nicotine for PD. We used an integrated approach where we conducted genome-wide studies in Drosophila and in humans, in parallel. The human genome-wide interaction study did not achieve the genome-wide significance threshold of 5×10-8; which was not surprising considering that detecting interactions requires much larger sample sizes than the standard genome-wide association studies 24. The Drosophila study, however, revealed a gene with genome-wide significance. We had planned that if the Drosophila study were successful in identifying a gene, we would test the association of its human homologue with PD to establish its relevance to disease. Surprisingly, the gene that emerged from the Drosophila study (CG14691) was a homologue of the gene that displayed the most significant evidence for interaction with smoking in the human study (SV2C). Thus, while SV2C did not achieve the genome-wide significance level of 5×10-8 required to qualify as a discovery, it did reach a highly significant level (P=2×10-6, or 1×10-7) to qualify as a validation of the discovery made in the fly. We also noted that SV2C genotype was not associated with the smoking habit. Thus, our data point to an interactive effect of SV2C genotype and nicotine on protection against parkinsonism.
The Drosophila and the human experiments were set up with the same goal of identifying genes that are involved in protection by smoking, although the study designs were inherently quite different. The fly experiment was done on a uniform genetic background, parkinsonism was induced with a single neurotoxin, and rescue was with controlled doses of pure nicotine. In contrast, humans were genetically diverse, represented an unknown level of heterogeneity in the causes of PD, and were exposed to all ~600 toxins in cigarettes. Furthermore, in flies, paraquat and nicotine were the predictors and gene expression the outcome; whereas in humans, genes and smoking were the predictors and PD the outcome. That two distinct, hypothesis-free experiments conducted in two species converge on a pair of homologues (CG14691 and SV2C) as the most significant genes argues for an important role for SV2C in the pathogenesis of parkinsonism and protection by nicotine.
In the brain, nicotine binds to nicotinic acetylcholine receptors with high affinity and enhances vesicular release of dopamine 25. Dopamine depletion is a hallmark of PD. A growing body of work has implicated altered synaptic transmitter release in the pathogenesis of PD 26. Synaptic vesicle proteins SV2A/SV2B/SV2C are integral membrane components of synaptic vesicles and have been implicated in storage and release of neurotransmitters 27, 28. A recent study has shown that modest changes in SV2 expression, in either direction, can have a significant impact on synaptic function 29. SV2C is densely expressed in dopaminergic neurons in substantia nigra 30. The findings of our study may therefore reflect a connection between nicotinic enhancement of vesicular dopamine release and altered neurotransmission due to changes in expression of SV2C.
The association of smoking with PD was genotype-specific and varied from highly protective to neutral and even harmful depending on SV2C genotype. This suggests that efficacy of nicotine as a neuroprotective treatment will not be uniform for all individuals and that clinical trials may benefit from pre-classification of subjects as high and low responders based on genotype. Nicotine has long been considered as a possible therapeutic agent for PD 31. Clinical studies of the symptomatic efficacy of transdermal nicotine treatment for PD have been relatively small, and most, but not all, have shown a beneficial effect on motor and cognitive functions 32-35. A randomized, placebo-controlled, double-blind multi-center trial was recently launched, with a larger sample size than attempted previously, to examine for the first time disease modifying potential of a nicotine patch for early PD (http://www.michaeljfox.org/research). This study provides an opportunity to evaluate utility of SV2C genotype for improving power and precision in assessing the efficacy of transdermal nicotine treatment. We acknowledge the distinction that our study examined risk of developing PD, whereas the trials are aimed at disease modification after onset of symptoms. It is however possible that nicotine plays a similar role in disease process before and after the onset of symptoms, a simple hypothesis that can be tested easily in a clinical trial setting.
The study had a number of limitations which need to be addressed in future studies. The interaction of SV2C genotype with the protective effect of smoking must be independently replicated. The molecular mechanism of the observed interactions needs to be worked out. Although the human data point to SV2C, the signal may be originating from another locus that is physically linked to SV2C. Similarly, the change in the expression of SV2C in the fly does not necessarily mean that this gene is directly involved in nicotine protection of neurons after toxic insult of paraquat. Experiments withSV2C mutant flies would be necessary to determine if the effect of nicotine is actually via SV2C pathway.
In summary, we have identified a novel PD-associated gene via interaction with protective effect of smoking/nicotine. Taken together, the cross-validating evidence from human and Drosophila studies, and the biological plausibility of the pathway that has emerged, suggest that SV2C plays a role in the pathogenesis of PD and that SV2C genotype might be a useful marker for pharmacogenomics studies of PD involving nicotine. The study provides leads and several testable hypotheses that have the potential to make a significant positive impact on personalized prevention and treatment strategies for PD.
2 Click here for additional data file (NIHMS402202-supplement-2.docx)
3 Click here for additional data file (NIHMS402202-supplement-3.docx)
4 Click here for additional data file (NIHMS402202-supplement-4.docx)
5 Click here for additional data file (NIHMS402202-supplement-5.docx)
6 Click here for additional data file (NIHMS402202-supplement-6.docx)
FN1SUPPLEMENTARY INFORMATION is available at The Pharmacogenomics Journal's website.
NGRC genome-wide genotype, phenotype, and environmental data are available from dbGaP (http://www.ncbi.nlm.nih.gov/gap, accession number phs000196.v2.p1). Microarray data on Drosophila paraquat-nicotine model are available from Gene Expression Omnibus (http://www.ncbi.nlm.nih.gov/geo/, accession number GSE35930).
FN3CONFLICT OF INTEREST
Authors have no conflicts of interest to disclose.
We thank the persons with Parkinson's disease and volunteers who participated in the study. We also thank Dr. John Nutt for his continued support for this project and Dr. Sridar Chittur (Center for Functional Genomics at State University of New York at Albany) for processing the expression arrays.
The project was funded by grants from the National Institute of Neurological Disorders And Stroke (R01NS36960 and R01NS067469). Additional support was provided by a Merit Review Award from the Department of Veterans Affairs (1I01BX000531), National Institutes of Aging (P30AG08017), Office of Research & Development, Clinical Sciences Research & Development Service, Department of Veteran Affairs, and the Close to the Cure Foundation. Genotyping services were provided by the Center for Inherited Disease Research which is funded by the National Institutes of Health (HHSN268200782096C).
|1.||Hernan MA,Takkouche B,Caamano-Isorna F,Gestal-Otero JJ. A meta-analysis of coffee drinking, cigarette smoking, and the risk of Parkinson's disease.Ann NeurolYear: 200252327628412205639|
|2.||Powers K,Kay D,Factor S,Zabetian C,Higgins D,Samii A,et al. Combined effects of smoking, coffee and NSAIDs on Parkinson's disease risk.Mov DisordYear: 2008231889517987647|
|3.||Quik M,Parameswaran N,McCallum SE,Bordia T,Bao S,McCormack A,et al. Chronic oral nicotine treatment protects against striatal degeneration in MPTP-treated primates.J NeurochemYear: 20069861866187516882311|
|4.||Chen JF,Xu K,Petzer JP,Staal R,Xu YH,Beilstein M,et al. Neuroprotection by caffeine and A(2A) adenosine receptor inactivation in a model of Parkinson's disease.J NeurosciYear: 20012110RC14311319241|
|5.||Evans AH,Lawrence AD,Potts J,MacGregor L,Katzenschlager R,Shaw K,et al. Relationship between impulsive sensation seeking traits, smoking, alcohol and caffeine intake, and Parkinson's disease.J Neurol Neurosurg PsychiatryYear: 200677331732116484638|
|6.||Hamza TH,Chen H,Hill-Burns EM,Rhodes SL,Montimurro J,Kay DM,et al. Genome-Wide Gene-Environment Study Identifies Glutamate Receptor Gene GRIN2A as a Parkinson's Disease Modifier Gene via Interaction with Coffee.PLoS GenetYear: 201178e100223721876681|
|7.||Costello S,Cockburn M,Bronstein J,Zhang X,Ritz B. Parkinson's disease and residential exposure to maneb and paraquat from agricultural applications in the central valley of California.Am J EpidemiolYear: 2009169891992619270050|
|8.||Wang A,Costello S,Cockburn M,Zhang X,Bronstein J,Ritz B. Parkinson's disease risk from ambient exposure to pesticides.Eur J EpidemiolYear: 201126754755521505849|
|9.||Tanner CM,Kamel F,Ross GW,Hoppin JA,Goldman SM,Korell M,et al. Rotenone, paraquat, and Parkinson's disease.Environ Health PerspectYear: 2011119686687221269927|
|10.||Chaudhuri A,Bowling K,Funderburk C,Lawal H,Inamdar A,Wang Z,et al. Interaction of genetic and environmental factors in a Drosophila parkinsonism model.J NeurosciYear: 200727102457246717344383|
|11.||Hamza TH,Zabetian CP,Tenesa A,Laederach A,Montimurro J,Yearout D,et al. Common genetic variation in the HLA region is associated with late-onset sporadic Parkinson's disease.Nat GenetYear: 201042978178520711177|
|12.||Hughes AJ,Daniel SE,Ben-Shlomo Y,Lees AJ. The accuracy of diagnosis of parkinsonian syndromes in a specialist movement disorder service.BrainYear: 2002125Pt 486187011912118|
|13.||Purcell S,Neale B,Todd-Brown K,Thomas L,Ferreira MA,Bender D,et al. PLINK: a tool set for whole-genome association and population-based linkage analyses.Am J Hum GenetYear: 200781355957517701901|
|14.||Barrett JC,Fry B,Maller J,Daly MJ. Haploview: analysis and visualization of LD and haplotype maps.BioinformaticsYear: 200521226326515297300|
|15.||Payami H,Joe S,Farid NR,Stenszki V,Chan SH,Thomson G. Relative predispositional effects (RPE's) of marker alleles with disease: HLA-DR and autoimmune thyroid disease.Am J Hum GenetYear: 1989455415462491013|
|16.||Hill-Burns EM,Factor SA,Zabetian CP,Thomson G,Payami H. Evidence for More than One Parkinson's Disease-Associated Variant within the HLA Region.PLoS OneYear: 2011611e2710922096524|
|17.||Wang K,Li M,Hadley D,Liu R,Glessner J,Grant SF,et al. PennCNV: an integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data.Genome ResYear: 200717111665167417921354|
|18.||Kaplan E,Meier EL. Nonparametric estimation from incomplete observations.J Am Statist AssocYear: 195853457481|
|19.||Gentleman R,Carey V,Bates D,Bolstad B,Dettling M,Dudoit S,et al. Bioconductor: open software development for computational biology and bioinformatics.Genome BiologyYear: 2004510R8015461798|
|20.||Wu Z,Irizarry RA. Preprocessing of oligonucleotide array dataYear: 2004226656658|
|21.||Smyth G. Gentleman R,Carey VJ,Huber W,Irizarry RA,Dudoit Slimma: Linear Models for Microarray Data.Bioinformatics and Computational Biology Solutions Using R and BioconductorYear: 2005397420SpringerNew York|
|22.||Benjamini Y,Hochberg Y. Controlling the false discovery rate: A practical and powerful approach to multiple testing.J Roy Statist Soc Ser BYear: 199557289300|
|23.||Hu Y,Flockhart I,Vinayagam A,Bergwitz C,Berger B,Perrimon N,et al. An integrative approach to ortholog prediction for disease-focused and other functional studies.BMC BioinformaticsYear: 201112135721880147|
|24.||Thomas D. Gene--environment-wide association studies: emerging approaches.Nat Rev GenetYear: 201011425927220212493|
|25.||Turner TJ. Nicotine enhancement of dopamine release by a calcium-dependent increase in the size of the readily releasable pool of synaptic vesicles.J NeurosciYear: 20042450113281133615601939|
|26.||Esposito G,Ana Clara F,Verstreken P. Synaptic vesicle trafficking and Parkinson's disease.Dev NeurobiolYear: 201272113414421563316|
|27.||Feany MB,Lee S,Edwards RH,Buckley KM. The synaptic vesicle protein SV2 is a novel type of transmembrane transporter.CellYear: 19927058618671355409|
|28.||Dardou D,Dassesse D,Cuvelier L,Deprez T,De Ryck M,Schiffmann SN. Distribution of SV2C mRNA and protein expression in the mouse brain with a particular emphasis on the basal ganglia system.Brain ResYear: 2011136713014520869353|
|29.||Nowack A,Malarkey EB,Yao J,Bleckert A,Hill J,Bajjalieh SM. Levetiracetam reverses synaptic deficits produced by overexpression of SV2A.PLoS OneYear: 2011612e2956022220214|
|30.||Janz R,Sudhof TC. SV2C is a synaptic vesicle protein with an unusually restricted localization: anatomy of a synaptic vesicle protein family.NeuroscienceYear: 19999441279129010625067|
|31.||Quik M,O'Leary K,Tanner CM. Nicotine and Parkinson's disease: implications for therapy.Mov DisordYear: 200823121641165218683238|
|32.||Itti E,Villafane G,Malek Z,Brugieres P,Capacchione D,Itti L,et al. Dopamine transporter imaging under high-dose transdermal nicotine therapy in Parkinson's disease: an observational study.Nucl Med CommunYear: 200930751351819451839|
|33.||Villafane G,Cesaro P,Rialland A,Baloul S,Azimi S,Bourdet C,et al. Chronic high dose transdermal nicotine in Parkinson's disease: an open trial.Eur J NeurolYear: 200714121313131617941858|
|34.||Lemay S,Chouinard S,Blanchet P,Masson H,Soland V,Beuter A,et al. Lack of efficacy of a nicotine transdermal treatment on motor and cognitive deficits in Parkinson's disease.Prog Neuropsychopharmacol Biol PsychiatryYear: 2004281313914687854|
|35.||Vieregge A,Sieberer M,Jacobs H,Hagenah JM,Vieregge P. Transdermal nicotine in PD: a randomized, double-blind, placebo-controlled study.NeurologyYear: 20015761032103511571330|
Keywords: SV2C, Nicotine, Parkinson's Disease.
Previous Document: A review on nitrogen and organics removal mechanisms in subsurface flow constructed wetlands: Depend...
Next Document: Metagenomic sequencing of the human gut microbiome before and after bariatric surgery in obese patie...