Evidence of gene-environment interaction for two genes on chromosome 4 and environmental tobacco smoke in controlling the risk of nonsyndromic cleft palate

Nonsyndromic cleft palate (CP) is one of the most common human birth defects and both genetic and environmental risk factors contribute to its etiology. We conducted a genome-wide association study (GWAS) using 550 CP case-parent trios ascertained in an international consortium. Stratified analysis among trios with different ancestries was performed to test for GxE interactions with common maternal exposures using conditional logistic regression models. While no single nucleotide polymorphism (SNP) achieved genome-wide significance when considered alone, markers in SLC2A9 and the neighboring WDR1 on chromosome 4p16.1 gave suggestive evidence of gene-environment interaction with environmental tobacco smoke (ETS) among 259 Asian trios when the models included a term for GxE interaction. Multiple SNPs in these two genes were associated with increased risk of nonsyndromic CP if the mother was exposed to ETS during the peri-conceptual period (3 months prior to conception through the first trimester). When maternal ETS was considered, fifteen of 135 SNPs mapping to SLC2A9 and 9 of 59 SNPs in WDR1 gave P values approaching genome-wide significance (10-6<P<10-4) in a test for GxETS interaction. SNPs rs3733585 and rs12508991 in SLC2A9 yielded P = 2.26×10-7 in a test for GxETS interaction. SNPs rs6820756 and rs7699512 in WDR1 also yielded P = 1.79×10-7 and P = 1.98×10-7 in a 1 df test for GxE interaction. Although further replication studies are critical to confirming these findings, these results illustrate how genetic associations for nonsyndromic CP can be missed if potential GxE interaction is not taken into account, and this study suggest SLC2A9 and WDR1 should be considered as candidate genes for CP. © 2014 Wu et al

Search for short baseline nu(e) disappearance with the T2K near detector

8 pages, 6 figures, submitted to PRD rapid communication8 pages, 6 figures, submitted to PRD rapid communicationWe thank the J-PARC staff for superb accelerator performance and the CERN NA61 collaboration for providing valuable particle production data. We acknowledge the support of MEXT, Japan; NSERC, NRC and CFI, Canada; Commissariat `a l’Energie Atomique and Centre National de la Recherche Scientifique–Institut National de Physique Nucle´aire et de Physique des Particules, France; DFG, Germany; INFN, Italy; National Science Centre (NCN), Poland; Russian Science Foundation, RFBR and Ministry of Education and Science, Russia; MINECO and European Regional Development Fund, Spain; Swiss National Science Foundation and State Secretariat for Education, Research and Innovation, Switzerland; STFC, UK; and DOE, USA. We also thank CERN for the UA1/NOMAD magnet, DESY for the HERA-B magnet mover system, NII for SINET4, the WestGrid and SciNet consortia in Compute Canada, GridPP, UK. In addition participation of individual researchers and institutions has been further supported by funds from ERC (FP7), EU; JSPS, Japan; Royal Society, UK; DOE Early Career program, USA

Updated T2K measurements of muon neutrino and antineutrino disappearance using 1.5 x 10(21) protons on target

We report measurements by the T2K experiment of the parameters $\theta_{23}$ and $\Delta m^{2}_{32}$ governing the disappearance of muon neutrinos and antineutrinos in the three flavor neutrino oscillation model. Utilizing the ability of the experiment to run with either a mainly neutrino or a mainly antineutrino beam, the parameters are measured separately for neutrinos and antineutrinos. Using $7.482 \times 10^{20}$ POT in neutrino running mode and $7.471 \times 10^{20}$ POT in antineutrino mode, T2K obtained, $\sin^{2}(\theta_{23})=0.51^{+0.08}_{-0.07}$ and $\Delta m^{2}_{32} = 2.53^{+0.15}_{-0.13} \times 10^{-3}$eV$^{2}$/c$^{4}$ for neutrinos, and $\sin^{2}({\overline{\theta}}_{23})=0.42^{+0.25}_{-0.07}$ and ${\Delta\overline{m}^2}_{32} = 2.55^{+0.33}_{-0.27} \times 10^{-3}$eV$^{2}$/c$^{4}$ for antineutrinos (assuming normal mass ordering). No significant differences between the values of the parameters describing the disappearance of muon neutrinos and antineutrinos were observed.Comment: 8 pages, 2 figure

Measurement of the muon neutrino inclusive charged-current cross section in the energy range of 1–3 GeV with the T2K INGRID detector

We report a measurement of the νμ-nucleus inclusive charged-current cross section (¼ σcc) on iron using data from the INGRID detector exposed to the J-PARC neutrino beam. The detector consists of 14 modules in total, which are spread over a range of off-axis angles from 0° to 1.1°. The variation in the neutrino energy spectrum as a function of the off-axis angle, combined with event topology information, is used to calculate this cross section as a function of neutrino energy. The cross section is measured to be σccð1.1 GeVÞ ¼ 1.10 0.15 ð10−38 cm2=nucleonÞ, σccð2.0 GeVÞ ¼ 2.07 0.27 ð10−38 cm2=nucleonÞ, and σccð3.3 GeVÞ ¼ 2.29 0.45 ð10−38 cm2=nucleonÞ, at energies of 1.1, 2.0, and 3.3 GeV, respectively. These results are consistent with the cross section calculated by the neutrino interaction generators currently used by T2K. More importantly, the method described here opens up a new way to determine the energy dependence of neutrino-nucleus cross sections

Measurement of the Inclusive Electron Neutrino Charged Current Cross Section on Carbon with the T2K Near Detector

The T2K off-axis near detector ND280 is used to make the first differential cross-section measurements of electron neutrino charged current interactions at energies similar to 1 GeV as a function of electron momentum, electron scattering angle, and four-momentum transfer of the interaction. The total flux-averaged nu(e) charged current cross section on carbon is measured to be (phi) = 1.11 +/- 0.10(stat) +/- 0.18(syst) x 10(-38) cm(2)/nucleon. The differential and total cross- section measurements agree with the predictions of two leading neutrino interaction generators, NEUT and GENIE. The NEUT prediction is 1.23 x 10(-38) cm(2)/nucleon and the GENIE prediction is 1.08 x 10(-38) cm(2)/nucleon. The total nu(e) charged current cross-section result is also in agreement with data from the Gargamelle experiment

Measurement of double-differential muon neutrino charged-current interactions on C8 H8 without pions in the final state using the T2K off-axis beam

We report the measurement of muon neutrino charged-current interactions on carbon without pions in the final state at the T2K beam energy using 5.734×1020 protons on target. For the first time the measurement is reported as a flux-integrated, double-differential cross section in muon kinematic variables (cosθμ, pμ), without correcting for events where a pion is produced and then absorbed by final state interactions. Two analyses are performed with different selections, background evaluations and cross-section extraction methods to demonstrate the robustness of the results against biases due to model-dependent assumptions. The measurements compare favorably with recent models which include nucleon-nucleon correlations but, given the present precision, the measurement does not distinguish among the available models. The data also agree with Monte Carlo simulations which use effective parameters that are tuned to external data to describe the nuclear effects. The total cross section in the full phase space is σ=(0.417±0.047(syst)±0.005(stat))×10-38 cm2 nucleon-1 and the cross section integrated in the region of phase space with largest efficiency and best signal-over-background ratio (cosθμ>0.6 and pμ>200 MeV) is σ=(0.202±0.036(syst)±0.003(stat))×10-38 cm2 nucleon-1

Measurement of Muon Antineutrino Oscillations with an Accelerator-Produced Off-Axis Beam.

T2K reports its first measurements of the parameters governing the disappearance of ν[over ¯]_{μ} in an off-axis beam due to flavor change induced by neutrino oscillations. The quasimonochromatic ν[over ¯]_{μ} beam, produced with a peak energy of 0.6 GeV at J-PARC, is observed at the far detector Super-Kamiokande, 295 km away, where the ν[over ¯]_{μ} survival probability is expected to be minimal. Using a data set corresponding to 4.01×10^{20} protons on target, 34 fully contained μ-like events were observed. The best-fit oscillation parameters are sin^{2}(θ[over ¯]_{23})=0.45 and |Δm[over ¯]_{32}^{2}|=2.51×10^{-3}  eV^{2} with 68% confidence intervals of 0.38-0.64 and 2.26-2.80×10^{-3}  eV^{2}, respectively. These results are in agreement with existing antineutrino parameter measurements and also with the ν_{μ} disappearance parameters measured by T2K

First measurement of the muon neutrino charged current single pion production cross section on water with the T2K near detector

The T2K off-axis near detector, ND280, is used to make the first differential cross section measurements of muon neutrino charged current single positive pion production on a water target at energies ∼0.8 GeV. The differential measurements are presented as a function of the muon and pion kinematics, in the restricted phase space defined by pπþ > 200 MeV=c, pμ > 200 MeV=c, cosðθπþ Þ > 0.3 and cosðθμÞ > 0.3. The total flux integrated νμ charged current single positive pion production cross section on water in the restricted phase space is measured to be hσiϕ ¼ 4.25 0.48ðstatÞ 1.56ðsystÞ × 10−40 cm2=nucleon. The total cross section is consistent with the NEUT prediction (5.03 × 10−40 cm2=nucleon) and 2σ lower than the GENIE prediction (7.68 × 10−40 cm2=nucleon). The differential cross sections are in good agreement with the NEUT generator. The GENIE simulation reproduces well the shapes of the distributions, but overestimates the overall cross section normalization