Admixture in the Hispanics of the San Luis Valley, Colorado, and its implications for complex trait gene mapping.

Hispanic populations are a valuable resource that can and should facilitate the identification of complex trait genes by means of admixture mapping (AM). In this paper we focus on a particular Hispanic population living in the San Luis Valley (SLV) in Southern Colorado. We used a set of 22 Ancestry Informative Markers (AIMs) to describe the admixture process and dynamics in this population. AIMs are defined as genetic markers that exhibit allele frequency differences between parental populations >or=30%, and are more informative for studying admixed populations than random markers. The ancestral proportions of the SLV Hispanic population are estimated as 62.7 +/- 2.1% European, 34.1 +/- 1.9% Native American and 3.2 +/- 1.5% West African. We also estimated the ancestral proportions of individuals using these AIMs. Population structure was demonstrated by the excess association of unlinked markers, the correlation between estimates of admixture based on unlinked marker sets, and by a highly significant correlation between individual Native American ancestry and skin pigmentation (R2= 0.082, p < 0.001). We discuss the implications of these findings in disease gene mapping efforts

DISTO data on Kpp

The data from the DISTO Collaboration on the exclusive pp -> p K+ Lambda production acquired at T_p = 2.85 GeV have been re-analysed in order to search for a deeply bound K- pp (= X) state, to be formed in the binary process pp -> K+ X. The preliminary spectra of the DeltaM_{K+} missing-mass and of the M_{p Lambda} invariant-mass show, for large transverse-momenta of protons and kaons, a distinct broad peak with a mass M_X = 2265 +- 2 MeV/c^2 and a width Gamma_X = 118 +- 8 MeV/c^2.Comment: 8 pages, 4 figures. Talk presented at the "10th International Conference on Hypernuclear and Strange Particle Physics" (HYP-X), Tokai, Ibaraki, Japan, September 14th-18th, 2009. To appear in the proceeding

Indication of a deeply bound compact K-pp state formed in the pp -> p Lambda K+ reaction at 2.85 GeV

We have analyzed data of the DISTO experiment on the exclusive pp -> p Lambda K+ reaction at 2.85 GeV to search for a strongly bound compact K-pp (= X) state to be formed in the pp -> K+ + X reaction. The observed spectra of the K+ missing-mass and the p Lambda invariant-mass with high transverse momenta of p and K+ revealed a broad distinct peak with a mass M_X = 2265 +- 2 (stat) +- 5 (syst) MeV/c2 and a width Gamma_X = 118 +- 8 (stat) +- 10 (syst) MeV.Comment: 4 pages, 4 figure

K−^- Meson Production in the Proton-Proton Reaction at 3.67 GeV/c

The total cross section of the reaction $pp\to ppK^+K^-$ has been determined for proton--proton reactions with $p_{beam}=3.67 GeV/c$. This represents the first cross section measurement of the $pp \to ppK^-K^+$ channel near threshold, and is equivalent to the inclusive $pp\to ppK^-X$ cross section at this beam momentum. The cross section determined at this beam momentum is about a factor 20 lower than that for inclusive $pp\to ppK^+X$ meson production at the same CM energy above the corresponding threshold. This large difference in the $K^+$ and $K^-$ meson inclusive production cross sections in proton-proton reactions is in strong contrast to cross sections measured in sub-threshold heavy ion collisions, which are similar in magnitude at the same energy per nucleon below the respective thresholds.Comment: 12 pages, 3 figures Phys. Lett. B in prin

Production of η′\eta\prime Mesons in the pp→ppη′pp \to pp\eta\prime Reaction at 3.67 GeV/c

The ratio of the total exclusive production cross sections for $\eta\prime$ and $\eta$ mesons has been measured in the $pp$ reaction at $p_{beam}=3.67$ GeV/c. The observed $\eta\prime/\eta$ ratio is $(0.83\pm{0.11}^{+0.23}_{-0.18})\times 10^{-2}$ from which the exclusive $\eta\prime$ meson production cross section is determined to be $(1.12\pm{0.15}^{+0.42}_{-0.31})\mu b$. Differential cross section distributions have been measured. Their shape is consistent with isotropic $\eta\prime$ meson production.Comment: 14 pages, 5 figures, accepted by Phys.Lett.

Genetic Ancestry, Social Classification, and Racial Inequalities in Blood Pressure in Southeastern Puerto Rico

The role of race in human genetics and biomedical research is among the most contested issues in science. Much debate centers on the relative importance of genetic versus sociocultural factors in explaining racial inequalities in health. However, few studies integrate genetic and sociocultural data to test competing explanations directly.We draw on ethnographic, epidemiologic, and genetic data collected in Southeastern Puerto Rico to isolate two distinct variables for which race is often used as a proxy: genetic ancestry versus social classification. We show that color, an aspect of social classification based on the culturally defined meaning of race in Puerto Rico, better predicts blood pressure than does a genetic-based estimate of continental ancestry. We also find that incorporating sociocultural variables reveals a new and significant association between a candidate gene polymorphism for hypertension (alpha(2C) adrenergic receptor deletion) and blood pressure.This study addresses the recognized need to measure both genetic and sociocultural factors in research on racial inequalities in health. Our preliminary results provide the most direct evidence to date that previously reported associations between genetic ancestry and health may be attributable to sociocultural factors related to race and racism, rather than to functional genetic differences between racially defined groups. Our results also imply that including sociocultural variables in future research may improve our ability to detect significant allele-phenotype associations. Thus, measuring sociocultural factors related to race may both empower future genetic association studies and help to clarify the biological consequences of social inequalities

DISTO: a large acceptance multiparticle spectrometer for 1–3 GeV proton beams

Abstract A magnetic spectrometer system has been constructed for the study of reactions with multiple charged particles in the final state, induced by polarized proton beams of few GeV energy. The system is based on a large-gap dipole magnet, with a liquid hydrogen target and scintillating fiber tracking detectors embedded inside the magnet. Multiwire proportional chambers, plastic scintillator hodoscopes, and threshold Cherenkov detectors placed outside the magnet provide additional tracking, triggering and particle identification capabilities. The system has been applied to study exclusive hyperon as well as pseudoscalar and vector meson production reactions at bombarding energies below 3 GeV. Additionally, it has been used to monitor the proton beam polarization at Laboratoire National Saturne. The components and performance of the system are reported

Genetic Admixture and Population Substructure in Guanacaste Costa Rica

The population of Costa Rica (CR) represents an admixture of major continental populations. An investigation of the CR population structure would provide an important foundation for mapping genetic variants underlying common diseases and traits. We conducted an analysis of 1,301 women from the Guanacaste region of CR using 27,904 single nucleotide polymorphisms (SNPs) genotyped on a custom Illumina InfiniumII iSelect chip. The program STRUCTURE was used to compare the CR Guanacaste sample with four continental reference samples, including HapMap Europeans (CEU), East Asians (JPT+CHB), West African Yoruba (YRI), as well as Native Americans (NA) from the Illumina iControl database. Our results show that the CR Guanacaste sample comprises a three-way admixture estimated to be 43% European, 38% Native American and 15% West African. An estimated 4% residual Asian ancestry may be within the error range. Results from principal components analysis reveal a correlation between genetic and geographic distance. The magnitude of linkage disequilibrium (LD) measured by the number of tagging SNPs required to cover the same region in the genome in the CR Guanacaste sample appeared to be weaker than that observed in CEU, JPT+CHB and NA reference samples but stronger than that of the HapMap YRI sample. Based on the clustering pattern observed in both STRUCTURE and principal components analysis, two subpopulations were identified that differ by approximately 20% in LD block size averaged over all LD blocks identified by Haploview. We also show in a simulated association study conducted within the two subpopulations, that the failure to account for population stratification (PS) could lead to a noticeable inflation in the false positive rate. However, we further demonstrate that existing PS adjustment approaches can reduce the inflation to an acceptable level for gene discovery

Population Substructure and Control Selection in Genome-Wide Association Studies

Determination of the relevance of both demanding classical epidemiologic criteria for control selection and robust handling of population stratification (PS) represents a major challenge in the design and analysis of genome-wide association studies (GWAS). Empirical data from two GWAS in European Americans of the Cancer Genetic Markers of Susceptibility (CGEMS) project were used to evaluate the impact of PS in studies with different control selection strategies. In each of the two original case-control studies nested in corresponding prospective cohorts, a minor confounding effect due to PS (inflation factor λ of 1.025 and 1.005) was observed. In contrast, when the control groups were exchanged to mimic a cost-effective but theoretically less desirable control selection strategy, the confounding effects were larger (λ of 1.090 and 1.062). A panel of 12,898 autosomal SNPs common to both the Illumina and Affymetrix commercial platforms and with low local background linkage disequilibrium (pair-wise r2<0.004) was selected to infer population substructure with principal component analysis. A novel permutation procedure was developed for the correction of PS that identified a smaller set of principal components and achieved a better control of type I error (to λ of 1.032 and 1.006, respectively) than currently used methods. The overlap between sets of SNPs in the bottom 5% of p-values based on the new test and the test without PS correction was about 80%, with the majority of discordant SNPs having both ranks close to the threshold. Thus, for the CGEMS GWAS of prostate and breast cancer conducted in European Americans, PS does not appear to be a major problem in well-designed studies. A study using suboptimal controls can have acceptable type I error when an effective strategy for the correction of PS is employed

Rho^0 meson production in the pp ->pppi+pi- reaction at 3.67 GeV/c

Total and differential cross sections for the exclusive reaction pp->pp rho^0 observed via the pi+pi- decay channel have been measured at beam momentum=3.67 GeV/c. The observed total meson production cross section is determined to be 23.4 +- 0.8 +-8 microb and is significantly lower than typical cross sections used in model calculations for heavy ion collisions. The differential cross sections measured indicate a strong anisotropy cos^2(theta^{CM}) in the rho^0 meson production.Comment: 3 figures, 11 page