| 1. |
- Clark, Andrew G., et al.
(författare)
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Evolution of genes and genomes on the Drosophila phylogeny
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
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Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
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| 2. |
- Schael, S, et al.
(författare)
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Precision electroweak measurements on the Z resonance
- 2006
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Ingår i: Physics Reports. - : Elsevier BV. - 0370-1573 .- 1873-6270. ; 427:5-6, s. 257-454
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Forskningsöversikt (refereegranskat)abstract
- We report on the final electroweak measurements performed with data taken at the Z resonance by the experiments operating at the electron-positron colliders SLC and LEP. The data consist of 17 million Z decays accumulated by the ALEPH, DELPHI, L3 and OPAL experiments at LEP, and 600 thousand Z decays by the SLID experiment using a polarised beam at SLC. The measurements include cross-sections, forward-backward asymmetries and polarised asymmetries. The mass and width of the Z boson, m(Z) and Gamma(Z), and its couplings to fermions, for example the p parameter and the effective electroweak mixing angle for leptons, are precisely measured: m(Z) = 91.1875 +/- 0.0021 GeV, Gamma(Z) = 2.4952 +/- 0.0023 GeV, rho(l) = 1.0050 +/- 0.0010, sin(2)theta(eff)(lept) = 0.23153 +/- 0.00016. The number of light neutrino species is determined to be 2.9840 +/- 0.0082, in agreement with the three observed generations of fundamental fermions. The results are compared to the predictions of the Standard Model (SM). At the Z-pole, electroweak radiative corrections beyond the running of the QED and QCD coupling constants are observed with a significance of five standard deviations, and in agreement with the Standard Model. Of the many Z-pole measurements, the forward-backward asymmetry in b-quark production shows the largest difference with respect to its SM expectation, at the level of 2.8 standard deviations. Through radiative corrections evaluated in the framework of the Standard Model, the Z-pole data are also used to predict the mass of the top quark, m(t) = 173(+10)(+13) GeV, and the mass of the W boson, m(W) = 80.363 +/- 0.032 GeV. These indirect constraints are compared to the direct measurements, providing a stringent test of the SM. Using in addition the direct measurements of m(t) and m(W), the mass of the as yet unobserved SM Higgs boson is predicted with a relative uncertainty of about 50% and found to be less than 285 GeV at 95% confidence level. (c) 2006 Elsevier B.V. All rights reserved.
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| 3. |
- Santangelo, James S., et al.
(författare)
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Global urban environmental change drives adaptation in white clover
- 2022
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 375
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Tidskriftsartikel (refereegranskat)abstract
- Urbanization transforms environments in ways that alter biological evolution. We examined whether urban environmental change drives parallel evolution by sampling 110,019 white clover plants from 6169 populations in 160 cities globally. Plants were assayed for a Mendelian antiherbivore defense that also affects tolerance to abiotic stressors. Urban-rural gradients were associated with the evolution of clines in defense in 47% of cities throughout the world. Variation in the strength of clines was explained by environmental changes in drought stress and vegetation cover that varied among cities. Sequencing 2074 genomes from 26 cities revealed that the evolution of urban-rural dines was best explained by adaptive evolution, but the degree of parallel adaptation varied among cities. Our results demonstrate that urbanization leads to adaptation at a global scale.
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| 4. |
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| 5. |
- Abdallah, J, et al.
(författare)
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Correlations between polarisation states of W particles in the reaction e(-)e(+)-> W-W+ at LEP2 energies 189-209 GeV
- 2009
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Ingår i: European Physical Journal C. - : Springer Science and Business Media LLC. - 1434-6044 .- 1434-6052. ; 63:4, s. 611-623
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Tidskriftsartikel (refereegranskat)abstract
- In a study of the reaction e(-)e(+)-> W-W+ with the DELPHI detector, the probabilities of the two W particles occurring in the joint polarisation states transverse-transverse (T T), longitudinal-transverse plus transverse-longitudinal (LT) and longitudinal-longitudinal (LL) have been determined using the final states WW -> lvq (q) over bar (l = e, mu). The two-particle joint polarisation probabilities, i.e. the spin density matrix elements rho T T, rho LT, rho LL, are measured as functions of the W- production angle, theta(W-), at an average reaction energy of 198.2 GeV. Averaged over all cos.W-, the following joint probabilities are obtained: (rho) over barT T = (67 +/- 8)%, (rho) over barL T = (30 +/- 8)%, (rho) over barL T = (3 +/- 7)%. These results are in agreement with the Standard Model predictions of 63.0%, 28.9% and 8.1%, respectively. The related polarisation cross-sections sigma(TT), sigma(LT) and sigma(LL) are also presented.
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| 6. |
- Abdallah, J, et al.
(författare)
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Inclusive single-particle production in two-photon collisions at LEP II with the DELPHI detector
- 2009
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 678:5, s. 444-449
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Tidskriftsartikel (refereegranskat)abstract
- A study of the inclusive charged hadron production in two-photon collisions is described. The data were collected with the DELPHI detector at LEP II. Results on the inclusive single-particle p(T) distribution and the differential charged hadrons d sigma/dp(T) cross-section are presented and compared to the predictions of perturbative NLO QCD calculations and to published results. (C) 2009 Elsevier B.V. All rights reserved.
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| 7. |
- Abdallah, J, et al.
(författare)
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Observation of the muon inner bremsstrahlung at LEP1
- 2008
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Ingår i: European Physical Journal C. - : Springer Science and Business Media LLC. - 1434-6044 .- 1434-6052. ; C:57, s. 499-514
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Tidskriftsartikel (refereegranskat)abstract
- Muon bremsstrahlung photons converted in front of the DELPHI main tracker (TPC) in dimuon events at LEP1 were studied in two photon kinematic ranges: 0.2< E-gamma <= 1 GeV and transverse momentum with respect to the parent muon p(T) < 40 MeV/c, and 1< E-gamma <= 10 GeV and pT < 80 MeV/c. A good agreement of the observed photon rate with predictions from QED for the muon inner bremsstrahlung was found, contrary to the anomalous soft photon excess that has been observed recently in hadronic Z(0) decays. The obtained ratios of the observed signal to the predicted level of the muon bremsstrahlung are 1.06 +/- 0.12 +/- 0.07 in the photon energy range 0.2< E-gamma <= 1 GeV and 1.04 +/- 0.09 +/- 0.12 in the photon energy range 1< E-gamma <= 10 GeV. The bremsstrahlung dead cone is observed for the first time in the direct photon production at LEP.
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| 8. |
- Schael, S., et al.
(författare)
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Electroweak measurements in electron positron collisions at W-boson-pair energies at LEP
- 2013
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Ingår i: Physics Reports. - : Elsevier BV. - 0370-1573 .- 1873-6270. ; 532:4, s. 119-244
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Forskningsöversikt (refereegranskat)abstract
- Electroweak measurements performed with data taken at the electron positron collider LEP at CERN from 1995 to 2000 are reported. The combined data set considered in this report corresponds to a total luminosity of about 3 fb(-1) collected by the four LEP experiments ALEPH, DELPHI, 13 and OPAL, at centre-of-mass energies ranging from 130 GeV to 209 GeV. Combining the published results of the four LEP experiments, the measurements include total and differential cross-sections in photon-pair, fermion-pair and four-fermion production, the latter resulting from both double-resonant WW and ZZ production as well as singly resonant production. Total and differential cross-sections are measured precisely, providing a stringent test of the Standard Model at centre-of-mass energies never explored before in electron positron collisions. Final-state interaction effects in four-fermion production, such as those arising from colour reconnection and Bose Einstein correlations between the two W decay systems arising in WW production, are searched for and upper limits on the strength of possible effects are obtained. The data are used to determine fundamental properties of the W boson and the electroweak theory. Among others, the mass and width of the W boson, m(w) and Gamma(w), the branching fraction of W decays to hadrons, B(W -> had), and the trilinear gauge-boson self-couplings g(1)(Z), K-gamma and lambda(gamma), are determined to be: m(w) = 80.376 +/- 0.033 GeV Gamma(w) = 2.195 +/- 0.083 GeV B(W -> had) = 67.41 +/- 0.27% g(1)(Z) = 0.984(-0.020)(+0.018) K-gamma - 0.982 +/- 0.042 lambda(gamma) = 0.022 +/- 0.019. (C) 2013 Elsevier B.V. All rights reserved.
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| 9. |
- Abdallah, J, et al.
(författare)
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Study of inclusive J/psi production in two-photon collisions at LEP II with the DELPHI detector
- 2003
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Ingår i: Physics Letters. Section B: Nuclear, Elementary Particle and High-Energy Physics. - 0370-2693. ; 565:1-4, s. 76-86
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Tidskriftsartikel (refereegranskat)abstract
- Inclusive J/psi production in photon-photon collisions has been observed at LEP II beam energies. A clear signal from the reaction gammagamma --> J/psi + X is seen. The number of observed N(J/psi --> mu(+)mu(-)) events is 36+/-7 for an integrated luminosity of 617 pb(-1), yielding a cross-section of sigma(J/psi + X) = 45+/-9(stat) +/- 17(syst) pb. Based on a study of the event shapes of different types of gammagamma processes in the PYTHIA program, we conclude that (74+/-22) % of the observed J/psi events are due to 'resolved' photons, the dominant contribution of which is most probably due to the gluon content of the photon. (C) 2003 Published by Elsevier B.V.
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| 10. |
- Motallebipour, Mehdi, et al.
(författare)
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Differential binding and co-binding pattern of FOXA1 and FOXA3 and their relation to H3K4me3 in HepG2 cells revealed by ChIP-seq
- 2009
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Ingår i: Genome Biology. - : Springer Science and Business Media LLC. - 1465-6906 .- 1474-760X. ; 10:11, s. R129-
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND: The forkhead box/winged helix family members FOXA1, FOXA2, and FOXA3 are of high importance in development and specification of the hepatic linage and the continued expression of liver-specific genes. RESULTS: Here, we present a genome-wide location analysis of FOXA1 and FOXA3 binding sites in HepG2 cells through chromatin immunoprecipitation with detection by sequencing (ChIP-seq) studies and compare these with our previous results on FOXA2. We found that these factors often bind close to each other in different combinations and consecutive immunoprecipitation of chromatin for one and then a second factor (ChIP-reChIP) shows that this occurs in the same cell and on the same DNA molecule, suggestive of molecular interactions. Using co-immunoprecipitation, we further show that FOXA2 interacts with both FOXA1 and FOXA3 in vivo, while FOXA1 and FOXA3 do not appear to interact. Additionally, we detected diverse patterns of trimethylation of lysine 4 on histone H3 (H3K4me3) at transcriptional start sites and directionality of this modification at FOXA binding sites. Using the sequence reads at polymorphic positions, we were able to predict allele specific binding for FOXA1, FOXA3, and H3K4me3. Finally, several SNPs associated with diseases and quantitative traits were located in the enriched regions. CONCLUSIONS: We find that ChIP-seq can be used not only to create gene regulatory maps but also to predict molecular interactions and to inform on the mechanisms for common quantitative variation.
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