bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association of Single Nucleotide Polymorphisms in Glycosylation Genes with Risk of Epithelial Ovarian Cancer
Authors: Sellers Thomas A. , Huang Yifan , Cunningham Julie , Goode Ellen L. , Sutphen Rebecca , Vierkant Robert A. , Kelemen Linda E. , Fredericksen Zachary S. , Liebow Mark , Pankratz V. Shane , Hartmann Lynn C. , Myer Jeff , Iversen Edwin S. , Schildkraut Joellen M. , Phelan Catherine 
Published: February 2008

Abstract
Studies suggest that underglycosylation of the cell membrane mucin MUC1 may be associated with epithelial ovarian cancer. We identified 26 genes involved in glycosylation and examined 93 single nucleotide polymorphisms (SNP) with a minor allele frequency of ≥0.05 in relation to incident ovarian cancer. Cases were ascertained at the Mayo Clinic, Rochester, MN (n = 396) or a 48-county region in North Carolina (Duke University; n = 534). Ovarian cancer–free controls (n = 1,037) were frequency matched to the cases on age, race, and residence. Subjects were interviewed to obtain data on risk factors and a sample of blood for DNA and genotyped using the Illumina GoldenGate assay. We excluded subjects and individual SNPs with genotype call rates of &lt;90%. Data were analyzed using logistic regression, with adjustment for age and residence. We fitted dominant, log additive, and recessive genetic models. Among Caucasians, nine SNPs in eight genes were associated with risk at P &lt; 0.05 under at least one genetic model before adjusting for multiple testing. A SNP in GALNT1 (rs17647532) was the only one that remained statistically significant after Bonferroni adjustment for multiple testing but was not statistically significant in Hardy-Weinberg equilibrium among controls. Haplotype analyses revealed a global association of GALNT1 with risk (P = 0.038, under a recessive genetic model), which largely reflected a decreased risk of one haplotype (0.10 frequency; odds ratio, 0.07; P = 0.01) compared with the most common haplotype (0.39 frequency). These results suggest that genetic polymorphisms in the glycoslyation process may be novel risk factors for ovarian cancer. (Cancer Epidemiol Biomarkers Prev 2008;17(2):397–404)
Meat Intake, Heterocyclic Amine Exposure, and Metabolizing Enzyme Polymorphisms in Relation to Colorectal Polyp Risk
Authors: Shin Aesun , Shrubsole Martha J. , Rice Jeffrey M. , Cai Qiuyin , Doll Mark A. , Long Jirong , Smalley Walter E. , Shyr Yu , Sinha Rashmi , Ness Reid M. , Hein David W. , Zheng Wei 
Published: February 2008

AbstractMost colorectal cancers arise from adenomatous polyps or certain hyperplastic polyps. Only a few studies have investigated potential genetic modifiers of the associations between meat intake and polyp risk, and results are inconsistent. Using data from the Tennessee Colorectal Polyp Study, a large colonoscopy-based study, including 1,002 polyp cases (557 adenoma only, 250 hyperplastic polyp only, 195 both polyps) and 1,493 polyp-free patients, we evaluated the association of colorectal polyp risk with carcinogen exposure from meat and genetic polymorphisms in enzymes involved in heterocyclic amine (HCA) metabolism, including N-acetyltransferase 1 (NAT1) and N-acetyltransferase 2 (NAT2), cytochrome P450 1A2 (CYP1A2), and aryl hydrocarbon receptor (AhR). Data on intake levels of meats by preparation methods, doneness preferences, and other lifestyle factors were obtained. Fourteen single nucleotide polymorphisms in the AhR, CYP1A2, NAT1, and NAT2 genes were evaluated. No clear association was found for any polymorphisms with polyp risk. However, apparent interactions were found for intake of meat and HCAs with AhR, NAT1, and NAT2 genotypes, and the interactions were statistically significant for the group with both adenomatous and hyperplastic polyps. Dose-response relationships with meat or HCA intake were found only among those with the AhR GA/AA (rs2066853) genotype, NAT1 rapid, or NAT2 rapid/intermediate acetylators but not among those with other genotypes of these genes. This dose-response relationship was more evident among those with both AhR GA/AA and the NAT1 rapid acetylator than those without this genotype combination. These results provide strong evidence for a modifying effect of metabolizing genes on the association of meat intake and HCA exposure with colorectal polyp risk. (Cancer Epidemiol Biomarkers Prev 2008;17(2):320–9)
Circulating Concentrations of Folate and Vitamin B12 in Relation to Prostate Cancer Risk: Results from the European Prospective Investigation into Cancer and Nutrition Study
Authors: Johansson Mattias , Appleby Paul N. , Allen Naomi E. , Travis Ruth C. , Roddam Andrew W. , Egevad Lars , Jenab Mazda , Rinaldi Sabina , Kiemeney Lambertus A. , Bueno-de-Mesquita H. Bas , Vollset Stein Emil , Ueland Per M. , Sánchez Maria-José , Quirós J. Ramón , González Carlos A. , Larrañaga Nerea , Chirlaque María Dolores , Ardanaz Eva , Sieri Sabina , Palli Domenico , Vineis Paolo , Tumino Rosario , Linseisen Jakob , Kaaks Rudolf , Boeing Heiner , Pischon Tobias , Psaltopoulou Theodora , Trichopoulou Antonia , Trichopoulos Dimitrios , Khaw Kay-Tee , Bingham Sheila , Hallmans Göran , Riboli Elio , Stattin Pär , Key Timothy J. 
Published: February 2008

Abstract
Background: Determinants of one-carbon metabolism, such as folate and vitamin B12, have been implicated in cancer development. Previous studies have not provided conclusive evidence for the importance of circulating concentrations of folate and vitamin B12 in prostate cancer etiology. The aim of the present study was to investigate the relationship between prostate cancer risk and circulating concentrations of folate and vitamin B12 in a large prospective cohort.
Methods: We analyzed circulating concentrations of folate and vitamin B12 in 869 cases and 1,174 controls, individually matched on center, age, and date of recruitment, nested within the European Prospective Investigation into Cancer and Nutrition cohort. Relative risks (RR) for prostate cancer were estimated using conditional logistic regression models.
Results: Overall, no significant associations were observed for circulating concentrations of folate (Ptrend = 0.62) or vitamin B12 (Ptrend = 0.21) with prostate cancer risk. RRs for a doubling in folate and vitamin B12 concentrations were 1.03 [95% confidence interval (95% CI), 0.92-1.16] and 1.12 (95% CI, 0.94-1.35), respectively. In the subgroup of cases diagnosed with advanced stage prostate cancer, elevated concentrations of vitamin B12 were associated with increased risk (RR for a doubling in concentration, 1.69; 95% CI, 1.05-2.72, Ptrend = 0.03). No other subgroup analyses resulted in a statistically significant association.
Conclusion: This study does not provide strong support for an association between prostate cancer risk and circulating concentrations of folate or vitamin B12. Elevated concentrations of vitamin B12 may be associated with an increased risk for advanced stage prostate cancer, but this association requires examination in other large prospective studies. (Cancer Epidemiol Biomarkers Prev 2007;17(2):279–85)
Assessment of Interactions between PAH Exposure and Genetic Polymorphisms on PAH-DNA Adducts in African American, Dominican, and Caucasian Mothers and Newborns
Authors: Wang Shuang , Chanock Stephen , Tang Deliang , Li Zhigang , Jedrychowski Wieslaw , Perera Frederica P. 
Published: February 2008

Abstract
Polycyclic aromatic hydrocarbons (PAH) are widespread pollutants commonly found in air, food, and drinking water. Benzo[a]pyrene is a well-studied representative PAH found in air from fossil fuel combustion and a transplacental carcinogen experimentally. PAHs bind covalently to DNA to form DNA adducts, an indicator of DNA damage, and an informative biomarker of potential cancer risk. Associations between PAH-DNA adduct levels and both cancer risk and developmental deficits have been seen in previous experimental and epidemiologic studies. Several genes have been shown to play an important role in the metabolic activation or detoxification of PAHs, including the cytochrome P450 genes CYP1A1 and CYP1B1 and the glutathione S-transferase (GST) genes GSTM1, and GSTT2. Genetic variation in these genes could influence susceptibility to adverse effects of PAHs in polluted air. Here, we have explored interactions between prenatal PAH exposure and 17 polymorphisms in these genes (rs2198843, rs1456432, rs4646903, rs4646421, rs2606345, rs7495708, rs2472299, rs162549, rs1056837, rs1056836, rs162560, rs10012, rs2617266, rs2719, rs1622002, rs140194, and gene deletion GSTM1-02) and haplotypes on PAH-DNA adducts in cord blood of 547 newborns and in maternal blood of 806 mothers from three different self-described ethnic groups: African Americans, Dominicans, and Caucasians. PAHs were measured by personal air monitoring of mothers during pregnancy. Significant interactions (p &lt; 0.05) were observed between certain genetic polymorphisms and CYP1A1 haplotype and PAHs in mothers and their newborns in the three ethnic groups. However, with our limited sample size, the current findings are suggestive only, warranting further study. (Cancer Epidemiol Biomarkers Prev 2008;17(2):405–13)
Plasma Insulin-Like Growth Factor I Is Inversely Associated with Colorectal Adenoma Recurrence: A Novel Hypothesis
Authors: Jacobs Elizabeth T. , Martínez María Elena , Alberts David S. , Ashbeck Erin L. , Gapstur Susan M. , Lance Peter , Thompson Patricia A. 
Published: February 2008

AbstractThe insulin-like growth factor I (IGF-I) axis has been proposed to be a significant factor in the development of certain cancers, including colorectal. However, results from epidemiologic studies suggest modest effects on colorectal cancer risk. Using cross-sectional and prospective study designs within the same cohort of men who had at least one adenoma at baseline, we investigated whether plasma IGF-I, IGF-I binding protein 1, and IGF-I binding protein 3 were associated with colorectal adenoma characteristics at baseline and whether their levels were related to odds for adenoma recurrence. Plasma levels of each marker were measured at baseline in 299 male participants in the Wheat Bran Fiber Trial, who were followed prospectively for recurrence of their adenomatous lesions. In cross-sectional analyses, plasma IGF-I was significantly positively associated with the presence of adenomas with any villous features (P = 0.04). In contrast, IGF-I levels were inversely associated with odds of colorectal adenoma recurrence, with adjusted odds ratios (95% confidence interval) of 0.55 (0.29-1.01) and 0.49 (0.26-0.91) for the second and third tertiles of IGF-I, respectively, compared with the first tertile (Ptrend = 0.02). The inverse association was stronger for advanced adenoma recurrence (Ptrend = 0.02) than for nonadvanced recurrence (Ptrend = 0.10). These results suggest that, once an adenoma is removed, higher IGF-I levels reduce the odds of the formation of new lesions in the colorectum. (Cancer Epidemiol Biomarkers Prev 2008;17(2):300–5)
Physical Activity and Survival after Diagnosis of Invasive Breast Cancer
Authors: Holick Crystal N. , Newcomb Polly A. , Trentham-Dietz Amy , Titus-Ernstoff Linda , Bersch Andrew J. , Stampfer Meir J. , Baron John A. , Egan Kathleen M. , Willett Walter C. 
Published: February 2008

Abstract
Previous studies suggest that increased physical activity may lower the risk of breast cancer incidence, but less is known about whether levels of physical activity after breast cancer diagnosis can influence survival. We prospectively examined the relation between postdiagnosis recreational physical activity and risk of breast cancer death in women who had a previous invasive breast cancer diagnosed between 1988 and 2001 (at ages 20-79 years). All women completed a questionnaire on recent postdiagnosis physical activity and other lifestyle factors. Among 4,482 women without history of recurrence at the time of completing the questionnaire, 109 died from breast cancer within 6 years of enrollment. Physical activity was expressed as metabolic equivalent task-hours per week (MET-h/wk); hazard ratios (HR) and 95% confidence intervals (95% CI) were estimated using Cox proportional hazards regression. After adjusting for age at diagnosis, stage of disease, state of residence, interval between diagnosis and physical activity assessment, body mass index, menopausal status, hormone therapy use, energy intake, education, family history of breast cancer, and treatment modality compared with women expending &lt;2.8 MET-h/wk in physical activity, women who engaged in greater levels of activity had a significantly lower risk of dying from breast cancer (HR, 0.65; 95% CI, 0.39-1.08 for 2.8-7.9 MET-h/wk; HR, 0.59; 95% CI, 0.35-1.01 for 8.0-20.9 MET-h/wk; and HR, 0.51; 95% CI, 0.29-0.89 for ≥21.0 MET-h/wk; P for trend = 0.05). Results were similar for overall survival (HR, 0.44; 95% CI, 0.32-0.60 for ≥21.0 versus &lt;2.8 MET-h/wk; P for trend &lt;0.001) and were similar regardless of a woman’s age, stage of disease, and body mass index. This study provides support for reduced overall mortality and mortality from breast cancer among women who engage in physical activity after breast cancer diagnosis. (Cancer Epidemiol Biomarkers Prev 2008;17(2):379–86)
Comprehensive Evaluation of ESR2 Variation and Ovarian Cancer Risk
Authors: Leigh Pearce Celeste , Near Aimee M. , Butler Johannah L. , Van Den Berg David , Bretsky Philip , Conti David V. , Stram Daniel O. , Pike Malcolm C. , Hirschhorn Joel N. , Wu Anna H. 
Published: February 2008

Abstract
Studies indicate that estrogen receptor β, encoded by the ESR2 gene on chromosome 14q, may play a role in ovarian carcinogenesis. Using the genetic structure data generated by the Breast and Prostate Cohort Consortium (BPC3), we have comprehensively characterized the role of haplotype diversity in ESR2 and risk of ovarian cancer. Five haplotypes with a frequency of ≥5% were observed in White subjects and five haplotype tagging SNPs (htSNP) were selected to capture the locus diversity with a minimum Rh2 of 0.81. The htSNPs were genotyped in 574 White controls, 417 White invasive ovarian cancer cases, and 123 White borderline ovarian cancer cases from case-control studies carried out in Los Angeles County from 1994 through 2004. No statistically significant association was observed between the five htSNPs and related haplotypes and risk of ovarian cancer overall. Haplotype D was associated with a nonstatistically significant increased risk of invasive ovarian cancer overall (odds ratio, 1.38; 95% confidence interval, 0.93-2.02; P = 0.11) relative to the most common haplotype and a statistically significant increased risk of invasive clear cell ovarian cancer (odds ratio, 3.88; 95% confidence interval, 1.28-11.73; P = 0.016). Haplotype D was also reported by the BPC3 to be associated with increased risk of breast cancer. This haplotype warrants further investigation to rule out any effect with invasive ovarian cancer risk. (Cancer Epidemiol Biomarkers Prev 2008;17(2):393–6)
The Effect of Multiple Mailings on Recruitment: The Multiethnic Cohort
Authors: Steffen Alana D. , Kolonel Laurence N. , Nomura Abraham M. , Nagamine Faye S. , Monroe Kristine R. , Wilkens Lynne R. 
Published: February 2008

Abstract
Background: The current study considers potential nonresponse bias and data quality issues in the Multiethnic Cohort, a prospective study of lifestyle-cancer associations among adults ages 45 to 75 years from five ethnic groups in Hawaii and California.
Methods: We examined determinants of early versus later response to the baseline questionnaire using logistic regression with response wave regressed on measures of demographics, history of illness, health behaviors, medication, and supplement use.
Results: Participants who were more health conscious tended to respond earlier. Female sex, more education, personal experience with cancer, more physical activity, and regular use of aspirin were associated with early response. Race other than white and current smoking were associated with later response. Of note, African-Americans and Latinos, with lower response rates, and Japanese, with the highest response rate overall, were more likely to respond to a later mailing. Results were generally consistent across sex, age groups (under 65, 65+), and ethnic groups and over time. Although repeated mailings increased the proportion responding and the diversity of participants, the percent of missing item responses increased somewhat with response wave.
Conclusion: Multiple mailings are recommended for recruiting ethnic minority groups but the tradeoff may be more missing data among later respondents. (Cancer Epidemiol Biomarkers Prev 2008;17(2):447–54)
DNA Methyltransferase and Alcohol Dehydrogenase: Gene-Nutrient Interactions in Relation to Risk of Colorectal Polyps
Authors: Jung Audrey Y. , Poole Elizabeth M. , Bigler Jeanette , Whitton John , Potter John D. , Ulrich Cornelia M. 
Published: February 2008

AbstractDisturbances in DNA methylation are a characteristic of colorectal carcinogenesis. Folate-mediated one-carbon metabolism is essential for providing one-carbon groups for DNA methylation via DNA methyltransferases (DNMTs). Alcohol, a folate antagonist, could adversely affect one-carbon metabolism. In a case-control study of colorectal polyps, we evaluated three single nucleotide polymorphisms (−149C&gt;T, −283T&gt;C, −579G&gt;T) in the promoter region of the DNMT3b gene, and a functional polymorphism in the coding region of the alcohol dehydrogenase ADH1C gene, ADH1C *2. Cases had a first diagnosis of colorectal adenomatous (n = 530) or hyperplastic (n = 202) polyps at the time of colonoscopy, whereas controls were polyp-free (n = 649). Multivariate logistic regression analysis was used to estimate odds ratios (OR) and corresponding 95% confidence intervals (CI). There were no significant main associations between the DNMT3b or ADH1C polymorphisms and polyp risk. However, DNMT3b −149TT was associated with an increase in adenoma risk among individuals with low folate and methionine intake (OR, 2.00; 95% CI, 1.06-3.78, P interaction = 0.10). The ADH1C *2/*2 genotype was associated with a possibly elevated risk for adenomatous polyps among individuals who consumed &gt;26 g of alcohol/d (OR, 1.95; 95% CI, 0.60-6.30), whereas individuals who were wild-type for ADH1C were not at increased risk of adenoma (P interaction = 0.01). These gene-diet interactions suggest that polymorphisms relevant to DNA methylation or alcohol metabolism may play a role in colorectal carcinogenesis in conjunction with a high-risk diet. (Cancer Epidemiol Biomarkers Prev 2008;17(2):330–8)
Analysis of the Impact of Model Nonlinearities in Inverse Problem Solving
Authors: Vukicevic T. , Posselt D. 
Published: February 2008

Abstract
In this study, the relationship between nonlinear model properties and inverse problem solutions is analyzed using a numerical technique based on the inverse problem theory formulated by Mosegaard and Tarantola. According to this theory, the inverse problem and solution are defined via convolution and conjunction of probability density functions (PDFs) that represent stochastic information obtained from the model, observations, and prior knowledge in a joint multidimensional space. This theory provides an explicit analysis of the nonlinear model function, together with information about uncertainties in the model, observations, and prior knowledge through construction of the joint probability density, from which marginal solution functions can then be evaluated. The numerical analysis technique derived from the theory computes the component PDFs in discretized form via a combination of function mapping on a discrete grid in the model and observation phase space and Monte Carlo sampling from known parametric distributions. The efficacy of the numerical analysis technique is demonstrated through its application to two well-known simplified models of atmospheric physics: damped oscillations and Lorenz’s three-component model of dry cellular convection. The major findings of this study include the following: (i) Use of a nonmonotonic forward model in the inverse problem gives rise to the potential for a multimodal posterior PDF, the realization of which depends on the information content of the observations and on observation and model uncertainties. (ii) The cumulative effect of observations over time, space, or both could render the final posterior PDF unimodal, even with the nonmonotonic forward model. (iii) A greater number of independent observations are needed to constrain the solution in the case of a nonmonotonic nonlinear model than for a monotonic nonlinear or linear forward model for a given number of degrees of freedom in control parameter space. (iv) A nonlinear monotonic forward model gives rise to a skewed unimodal posterior PDF, implying a well-posed maximum likelihood inverse problem. (v) The presence of model error greatly increases the possibility of capturing multiple modes in the posterior PDF with the nonmonotonic nonlinear model. (vi) In the case of a nonlinear forward model, use of a Gaussian approximation for the prior update has a similar effect to an increase in model error, which indicates there is the potential to produce a biased mean central estimate even when observations and model are unbiased.
Antarctic Bottom Water Variability in a Coupled Climate Model
Authors: Santoso Agus , England Matthew H. 
Published: February 2008

Abstract
The natural variability of the Weddell Sea variety of Antarctic Bottom Water (AABW) is examined in a long-term integration of a coupled climate model. Examination of passive tracer concentrations suggests that the model AABW is predominantly sourced in the Weddell Sea. The maximum rate of the Atlantic sector Antarctic overturning (ψatl) is shown to effectively represent the outflow of Weddell Sea deep and bottom waters and the compensating inflow of Warm Deep Water (WDW). The variability of ψatl is found to be driven by surface density variability, which is in turn controlled by sea surface salinity (SSS). This suggests that SSS is a better proxy than SST for post-Holocene paleoclimate reconstructions of the AABW overturning rate. Heat–salt budget and composite analyses reveal that during years of high Weddell Sea salinity, there is an increased removal of summertime sea ice by enhanced wind-driven ice drift, resulting in increased solar radiation absorbed into the ocean. The larger ice-free region in summer then leads to enhanced air–sea heat loss, more rapid ice growth, and therefore greater brine rejection during winter. Together with a negative feedback mechanism involving anomalous WDW inflow and sea ice melting, this results in positively correlated θ–S anomalies that in turn drive anomalous convection, impacting AABW variability. Analysis of the propagation of θ–S anomalies is conducted along an isopycnal surface marking the separation boundary between AABW and the overlying Circumpolar Deep Water. Empirical orthogonal function analyses reveal propagation of θ–S anomalies from the Weddell Sea into the Atlantic interior with the dominant modes characterized by fluctuations on interannual to centennial time scales. Although salinity variability is dominated by along-isopycnal propagation, θ variability is dominated by isopycnal heaving, which implies propagation of density anomalies with the speed of baroclinic waves.