Research Topics
Genomes and Genes
| Andrew W BergenSummaryAffiliation: SRI International Country: USA Publications
| Collaborators
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Detail Information
Publications
Nicotinic acetylcholine receptor variation and response to smoking cessation therapiesAndrew W Bergen
Center for Health Sciences, SRI International, Menlo Park, CA 94025, USA
Pharmacogenet Genomics 23:94-103. 2013....
Chronic psychosocial stressors and salivary biomarkers in emerging adultsAndrew W Bergen
Center for Health Sciences, SRI International, Menlo Park, CA 94025, United States
Psychoneuroendocrinology 37:1158-70. 2012..Alcohol use disorders, tobacco use, a reduced acute stress response and decreased salivary IL8 gene expression characterize emerging adults chronically exposed to severe and threatening psychosocial stressors...- Dopamine genes and nicotine dependence in treatment-seeking and community smokersAndrew W Bergen
Center for Health Sciences, SRI International, Menlo Park, CA 94025, USA
Neuropsychopharmacology 34:2252-64. 2009..A community cohort of N=175 multiplex ever-smoking pedigrees (N=423 ever smokers) provided nominal evidence for association with the FTND at these top ranked SNPs, uncorrected for multiple comparisons... - Cis sequence effects on gene expressionAndrew W Bergen
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, MD USA
BMC Genomics 8:296. 2007.... - A genome-wide association study of lung cancer identifies a region of chromosome 5p15 associated with risk for adenocarcinomaMaria Teresa Landi
Division of Cancer Epidemiology, National Cancer Institute, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
Am J Hum Genet 85:679-91. 2009..In conclusion, a lung cancer GWAS identified a distinct hereditary contribution to adenocarcinoma... - Phase I metabolic genes and risk of lung cancer: multiple polymorphisms and mRNA expressionMelissa Rotunno
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, United States of America
PLoS ONE 4:e5652. 2009..Our findings emphasize the necessity of post-GWAS fine mapping and SNP functional assessment to further elucidate cancer risk associations... - SLC6A3 and body mass index in the Prostate, Lung, Colorectal and Ovarian Cancer Screening TrialElizabeth M Azzato
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Rockville, Maryland, USA
BMC Med Genet 10:9. 2009.... 
DRD2 genetic variation in relation to smoking and obesity in the Prostate, Lung, Colorectal, and Ovarian Cancer Screening TrialLindsay M Morton
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Rockville, MD 20852, USA
Pharmacogenet Genomics 16:901-10. 2006..To assess the specificity of genetic effects, we also investigated other reward-motivated characteristics (obesity, alcohol consumption)...- Genetic variation in catechol-O-methyltransferase (COMT) and obesity in the prostate, lung, colorectal, and ovarian (PLCO) cancer screening trialSophia S Wang
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, 6120 Executive Blvd, EPS 5104, MSC 7234, Rockville, MD 20852, USA
Hum Genet 122:41-9. 2007..Our results support a need for comprehensive evaluation of COMT variations and their functional relevance as COMT may be an important molecular target to evaluate for new treatments regarding obesity... - Nicotine withdrawal sensitivity, linkage to chr6q26, and association of OPRM1 SNPs in the SMOking in FAMilies (SMOFAM) sampleJill Hardin
SRI International, Menlo Park, CA 94025, USA
Cancer Epidemiol Biomarkers Prev 18:3399-406. 2009..A previous autosome-wide screen identified a nonparametric linkage (NPL) log-likelihood ratio (LOD) score of 2.7 on chromosome 6q26 for the sum of nine withdrawal symptoms... - Alcohol consumption and lung cancer risk in the Environment and Genetics in Lung Cancer Etiology (EAGLE) studyVincenzo Bagnardi
Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, 6120 Executive Blvd, EPS 7114, Bethesda, MD 20892 7236, USA
Am J Epidemiol 171:36-44. 2010..Although residual confounding by tobacco smoking cannot be ruled out, this finding may reflect interplay between alcohol and smoking, emphasizing the need for preventive measures... - Pathway analysis by adaptive combination of P-valuesKai Yu
Division of Cancer Epidemiology and Genetics, NCI, Rockville, Maryland 20892, USA
Genet Epidemiol 33:700-9. 2009..We also illustrate the advantage of the proposed methods using a study of the association between the nicotinic receptor pathway and cigarette smoking behaviors... - A partially linear tree-based regression model for multivariate outcomesKai Yu
Division of Cancer Epidemiology and Genetics, NCI, Rockville, Maryland 20892, USA
Biometrics 66:89-96. 2010..The proposed method is general enough to be used for the assessment of the joint effect of a set of multiple risk factors on a multivariate outcome in other biomedical research settings... - MicroRNA expression differentiates histology and predicts survival of lung cancerMaria Teresa Landi
Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Department of Health and Human Services, Bethesda, Maryland 20892 7236, USA
Clin Cancer Res 16:430-41. 2010..The molecular drivers that determine histology in lung cancer are largely unknown. We investigated whether microRNA (miR) expression profiles can differentiate histologic subtypes and predict survival for non-small cell lung cancer... - Resequencing of nicotinic acetylcholine receptor genes and association of common and rare variants with the Fagerström test for nicotine dependenceJennifer Wessel
Center for Health Sciences, SRI International, Menlo Park, CA 94025, USA
Neuropsychopharmacology 35:2392-402. 2010..Both common and/or rare SNP/SNVs from multiple nAChR subunit genes are associated with the FTND score in this sample of treatment-seeking smokers... - A gene expression signature from peripheral whole blood for stage I lung adenocarcinomaMelissa Rotunno
Division of Cancer Epidemiology and Genetics, NCI, NIH, Department of Health and Human Services, Bethesda, MD 20892, USA
Cancer Prev Res (Phila) 4:1599-608. 2011..81, 95% CI = 0.74-0.87). Our finding suggests the use of gene expression from PWB for the identification of early detection markers of lung cancer in the future... - Linkage analysis of the GAW14 simulated dataset with microsatellite and single-nucleotide polymorphism markers in large pedigreesXiaohong Rose Yang
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Bethesda, Maryland, USA
BMC Genet 6:S14. 2005..Finally, our results suggested that each linkage program had limitations in handling the large, complex pedigrees as well as a high-density SNP marker set... - Comparison of yield and genotyping performance of multiple displacement amplification and OmniPlex whole genome amplified DNA generated from multiple DNA sourcesAndrew W Bergen
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892 7236, USA
Hum Mutat 26:262-70. 2005.... - Identification of susceptibility loci for complex diseases in a case-control association study using the Genetic Analysis Workshop 14 datasetKimberly F Kerstann
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Bethesda, Maryland, USA
BMC Genet 6:S102. 2005..This result was most likely due to the method used for data simulation. In general, this study showed that conventional case-control association methods could detect disease loci responsible for the development of complex traits... - Genomic regions linked to alcohol consumption in the Framingham Heart StudyAndrew W Bergen
Core Genotyping Facility, Advanced Technology Center, National Cancer Institute, NIH, DHHS, Gaithersburg, Maryland, USA
BMC Genet 4:S101. 2003.... - Genetic and environmental influences on the ratio of 3'hydroxycotinine to cotinine in plasma and urineGary E Swan
Center for Health Sciences, SRI International, Menlo Park, CA 94025, USA
Pharmacogenet Genomics 19:388-98. 2009..This analysis sought to conduct a combined genetic epidemiologic and pharmacogenetic investigation of the 3HC/COT ratio in plasma and urine... - Genome-wide and candidate gene association study of cigarette smoking behaviorsNeil Caporaso
Division of Cancer Epidemiology and Genetics, NCI, Bethesda, Maryland, United States of America
PLoS ONE 4:e4653. 2009..4x10(-5)), our analysis provides independent replication of the association between the chr15q25.1 region and smoking intensity and data for multiple other loci associated with smoking behavior that merit further follow-up... - Mood disorders and risk of lung cancer in the EAGLE case-control study and in the U.S. Veterans Affairs inpatient cohortDavid E Capo-Ramos
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, United States of America
PLoS ONE 7:e42945. 2012..Mood disorders may affect lung cancer risk. We evaluated this hypothesis in two large studies... - Environment And Genetics in Lung cancer Etiology (EAGLE) study: an integrative population-based case-control study of lung cancerMaria Teresa Landi
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Bethesda, MD, USA
BMC Public Health 8:203. 2008..A new framework of research is needed to address the challenges offered by this complex disease... - Effects of DNA mass on multiple displacement whole genome amplification and genotyping performanceAndrew W Bergen
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
BMC Biotechnol 5:24. 2005..A total of N = 6,880 STR and N = 56,448 SNP genotype attempts provided adequate power to detect differences in STR and SNP genotyping performance between gDNA and wgaDNA, and among wgaDNA produced from a range of gDNA templates inputs... - A systems biology network model for genetic association studies of nicotine addiction and treatmentPaul D Thomas
Evolutionary Systems Biology, Artificial Intelligence Center, SRI International, Menlo Park, CA 94025, USA
Pharmacogenet Genomics 19:538-51. 2009..We suggest that known or hypothesized disease risk factors, and causal mechanisms, can be represented using an ontology, a computational specification of a set of concepts and the relations between them... - Corroboration of a familial chordoma locus on chromosome 7q and evidence of genetic heterogeneity using single nucleotide polymorphisms (SNPs)Xiaohong Rose Yang
Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Bethesda, MD, USA
Int J Cancer 116:487-91. 2005..Our study also provided insights into some limitations and analytical complexities associated with using a dense SNP marker set in linkage analysis of complex pedigrees... - Clinical trial participant characteristics and saliva and DNA metricsDenise M Nishita
Center for Health Sciences, SRI International, Menlo Park, CA, 94025, USA
BMC Med Res Methodol 9:71. 2009..This article describes an assessment of saliva biospecimen samples collected through the mail, trial participant demographic and behavioral characteristics, and their association with saliva and DNA quantity and quality... - Predictors of sustained smoking cessation: a prospective analysis of chronic smokers from the alpha-tocopherol Beta-carotene cancer prevention studyErik M Augustson
National Cancer Institute, DCCPS TCRB, EPN 4039B, 6130 Executive Blvd, MSC 7337, Bethesda, MD 20892 7337, USA
Am J Public Health 98:549-55. 2008..Using a nested case-control design, we explored the association between ability to sustain cessation over an extended period and demographic, smoking, medical, and behavioral variables... - Long-term storage and recovery of buccal cell DNA from treated cardsAlice J Sigurdson
Radiation Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Department of Health and Human Services, 6120 Executive Boulevard, EPS 7092, MSC 7238, Bethesda, Maryland 20892 7238, USA
Cancer Epidemiol Biomarkers Prev 15:385-8. 2006..Using these methods, treated cards did not consistently provide sufficient quantities of buccal cell gDNA after 7 years of storage for genotyping or WGA... - Polynucleotide kinase 3' phosphatase variant, dietary variables and risk of adenoma recurrence in the Polyp Prevention TrialGwen Murphy
Cancer Prevention Fellowship Program, Office of Preventive Oncology, Bethesda, Maryland, USA
Eur J Cancer Prev 17:287-90. 2008..Furthermore, we found no effect modification between genotype, dietary components and risk of adenoma recurrence. The PNKP T5644G variant does not seem to be involved in adenoma recurrence in the Polyp Prevention Trial... - Association of multiple DRD2 polymorphisms with anorexia nervosaAndrew W Bergen
Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892 7236, USA
Neuropsychopharmacology 30:1703-10. 2005..Genetically transmitted variation in D2 dopamine receptor expression mediated by functional polymorphisms affecting transcription and translation efficiency may play a role in vulnerability to AN... - Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survivalMaria Teresa Landi
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health NIH, Department of Health and Human Services DHHS, Bethesda, Maryland, USA
PLoS ONE 3:e1651. 2008..Tobacco smoking is responsible for over 90% of lung cancer cases, and yet the precise molecular alterations induced by smoking in lung that develop into cancer and impact survival have remained obscure... - Effects of electron-beam irradiation on whole genome amplificationAndrew W Bergen
Division of Cancer Epidemiology and Genetics, National Cancer Institute, 6120 Executive Boulevard, Bethesda, MD 20892 7236, USA
Cancer Epidemiol Biomarkers Prev 14:1016-9. 2005..Multiple Displacement Amplification wgaDNA derived from E-beam-irradiated gDNA is not suitable for genotyping analysis... - The Twin Research Registry at SRI InternationalRuth E Krasnow
Center for Health Sciences, SRI International, Menlo Park, CA, USA
Twin Res Hum Genet 16:463-70. 2013..Twins in the TRR have participated in studies of complex, clinically relevant phenotypes that would not be feasible to measure in larger samples... - Genetic variation and willingness to participate in epidemiologic research: data from three studiesParveen Bhatti
Radiation Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Department of Health and Human Services, 6120 Executive Boulevard, EPS 7091, MSC 7238, Bethesda, MD 20892 7238, USA
Cancer Epidemiol Biomarkers Prev 14:2449-53. 2005..To the extent possible, investigators should evaluate their own genetic data for bias in response categories... - Genome-wide linkage of cotinine pharmacokinetics suggests candidate regions on chromosomes 9 and 11Yungang He
Center for Health Sciences, SRI International, Menlo Park, California 94025, USA
Am J Med Genet B Neuropsychiatr Genet 150:554-9. 2009..96 (P = 0.0013) and 1.94 (P = 0.0014). The confidence level of the linkage between the three genome regions and cotinine pharmacokinetics is statistically significant with a genome-wide empirical probability of P = 0.029... - Performance of high-throughput DNA quantification methodsKashif A Haque
Core Genotyping Facility, SAIC Frederick, Inc, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
BMC Biotechnol 3:20. 2003..The effects of manual and robotic laboratory sample handling procedures on the estimates of DNA concentration were assessed using variance components analyses... - CYP1A1 and CYP1B1 genotypes, haplotypes, and TCDD-induced gene expression in subjects from Seveso, ItalyMaria Teresa Landi
Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, 6120 Executive Blvd, EPS, Bethesda, MD 20892 7236, USA
Toxicology 207:191-202. 2005..Genetic variation in cytochrome P450 induction may identify subjects with variable responsiveness to TCDD and potentially increased risk of disease... - Linkage analysis of anti-CCP levels as dichotomized and quantitative traits using GAW15 single-nucleotide polymorphism scan of NARAC familiesXiaohong R Yang
Division of Cancer Epidemiology and Genetics, National Cancer Institute, 6120 Executive Boulevard, MSC 7236, Bethesda, Maryland 20892, USA
BMC Proc 1:S107. 2007..Our study also highlighted that quantitative trait linkage results are highly sensitive to phenotype transformation and analytic approaches... - Inflammatory cytokine gene polymorphisms, nonsteroidal anti-inflammatory drug use, and risk of adenoma polyp recurrence in the polyp prevention trialLeah B Sansbury
Center for Cancer Research, National Cancer Institute, NIH, Department of Health and Human Services, Suite 702, 6116 Executive Boulevard, MSC 8235, Bethesda, MD 20892 8325, USA
Cancer Epidemiol Biomarkers Prev 15:494-501. 2006..Furthermore, common variants in cytokine genes may modify the anti-inflammatory effect of nonsteroidal anti-inflammatory drugs (NSAIDs) in the prevention of colorectal cancer... - A genome-wide linkage scan for body mass index on Framingham Heart Study familiesRoxana Moslehi
Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, DHHS, Bethesda, Maryland, USA
BMC Genet 4:S97. 2003..BMI was defined as weight (kg) over the square of height (m), where weight and height were obtained from the first measurement available between the ages of 40 and 50 years...