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  • 2010-2014  (36)
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  • 1
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    A systematic 2-D Investigation into the mantle wedge's transient flow regime and thermal structure: Complexities arising from a hydrated rheology and thermal buoyancy (2013)
    Wiley-Blackwell
    Details
    Publication Date: 2013-11-30
    Description: Arc volcanism at subduction zones is likely regulated by the mantle wedge's flow regime and thermal structure and, hence, numerous studies have attempted to quantify the principal controls on mantle wedge conditions. In this paper, we build on these previous studies by undertaking a systematic 2-D numerical investigation into how a hydrated rheology and thermal buoyancy influence the wedge's flow regime and associated thermal structure. We quantify the role of a range of plausible: (i) water contents (0-5000 H/10 6 Si); (ii) subduction velocities (2-10 cm/yr); and (iii) upper-plate ages (50-120 Myr), finding that small-scale convection (SSC), resulting from Rayleigh-Taylor instabilities, or drips, off the base of the overriding lithosphere, is a typical occurrence. The morphology of SSC varies with viscosity and subduction parameters, with drips at their most prominent when subduction velocities and wedge viscosities are low. Our results confirm that high subduction velocities and wedge viscosities promote a dominantly corner-flow regime, and strong upper-plate erosion below the arc region. By contrast, we find that back-arc upper-plate erosion by SSC is largely controlled by wedge viscosity, occurring when: (i) viscosities are 〈 5 10 18 Pa s; and (ii) the length of the upper plate, available for destabilisation, exceeds the characteristic wavelength of instabilities. Thus, if hydrous weakening of wedge rheology extends at least 100 - 150km from the trench, our 2-D models predict an unstable flow regime, resulting in temperature fluctuations of 50-100K, which are sufficient to influence melting and the stability of hydrous minerals.
    Electronic ISSN: 1525-2027
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Published by Wiley-Blackwell on behalf of American Geophysical Union (AGU).
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  • 2
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    Interaction of subducted slabs with the mantle transition-zone: A regime diagram from 2-D thermomechanical models with a mobile trench and an overriding plate (2014)
    Wiley-Blackwell
    Details
    Publication Date: 2014-04-11
    Description: Transition zone slab deformation influences Earth's thermal, chemical and tectonic evolution. However, the mechanisms responsible for the wide-range of imaged slab morphologies remain debated. Here, we use 2-D thermo-mechanical models with a mobile trench, an overriding plate, a temperature- and stress-dependent rheology, and a 10, 30 or 100-fold increase in lower mantle viscosity, to investigate the effect of initial subducting- and overriding-plate ages on slab transition-zone interaction. Four subduction styles emerge: (i) a “vertical folding” mode, with a quasi-stationary trench, near-vertical subduction and buckling/folding at depth (VF); (ii) slabs that induce mild trench retreat, which are flattened/“horizontally deflected” and stagnate at the upper-lower mantle interface (HD); (iii) inclined slabs, which result from rapid sinking and strong trench retreat (ISR); (iv) a two-stage mode, displaying backward-bent and subsequently inclined slabs, with late trench retreat (BIR). Transitions from regime (i) to (iii) occur with increasing subducting-plate age (i.e. buoyancy and strength). Regime (iv) develops for old (strong) subducting and overriding plates. We find that the interplay between trench motion and slab deformation at depth dictate the subduction style, both being controlled by slab strength, which is consistent with predictions from previous compositional subduction models. However, due to feedbacks between deformation, sinking rate, temperature and slab strength, the subducting-plate buoyancy, overriding-plate strength and upper-lower mantle viscosity jump are also important controls in thermo-mechanical subduction. For intermediate upper-lower mantle viscosity jumps (×30), our regimes reproduce the diverse range of seismically imaged slab morphologies.
    Electronic ISSN: 1525-2027
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Published by Wiley-Blackwell on behalf of American Geophysical Union (AGU).
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  • 3
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    Three-dimensional tsunami propagation simulations using an unstructured mesh finite element model (2013)
    Wiley-Blackwell
    Details
    Publication Date: 2013-05-23
    Description: [1]  Large-scale tsunami propagation simulations from the fault region to the coast are conducted using a three-dimensional (3-D) parallel unstructured mesh finite element code (Fluidity-ICOM). Unlike conventional 2-D approximation models, our tsunami model solves the full 3-D incompressible Navier–Stokes (NS) equations. The model is tested against analytical solutions to simple dispersive wave propagation problems. Comparisons of our 3-D NS model results with those from linear shallow water and linear dispersive wave models demonstrate that the 3-D NS model simulates the dispersion of very short wavelength components more accurately than the 2-D models. This improved accuracy is achieved using only a small number (3–5) of vertical layers in the mesh. The numerical error in the wave velocity compared with the linear wave theory is less than 3 % up to kH  = 40, where k is the wave number and H is the sea depth. The same 2-D and 3-D models are also used to simulate two earthquake-generated tsunamis off the coast of Japan: the 2004 off Kii peninsula and the 2011 off Tohoku tsunamis. The linear dispersive and NS models showed good agreement in the leading waves, but differed especially in their near-source, short-wavelength dispersive wave components. This is consistent with results from earlier tests, suggesting that the 3-D NS simulations are more accurate. The computational performance on a parallel computer showed good scalability up to 512 cores. By using a combination of unstructured meshes and high-performance computers, highly accurate 3-D tsunami simulations can be conducted in a practical time scale.
    Print ISSN: 0148-0227
    Topics: Geosciences , Physics
    Published by Wiley-Blackwell on behalf of American Geophysical Union (AGU).
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  • 4
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    Lead Time and Overdiagnosis (2014)
    Oxford University Press
    Details
    Publication Date: 2014-11-03
    Electronic ISSN: 1460-2105
    Topics: Medicine
    Published by Oxford University Press
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  • 5
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    Improving Docking Results via Reranking of Ensembles of Ligand Poses in Multiple X-ray Protein Conformations with MM-GBSA (2014)
    American Chemical Society (ACS)
    Details
    Publication Date: 2014-10-01
    Description: Journal of Chemical Information and Modeling DOI: 10.1021/ci5003735
    Topics: Chemistry and Pharmacology
    Published by American Chemical Society (ACS)
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  • 6
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    Randomized, phase 2 trial of low-dose cytarabine with or without volasertib in AML patients not suitable for induction therapy (2014)
    American Society of Hematology (ASH)
    In: Blood
    Details
    Publication Date: 2014-08-29
    Description: Treatment outcomes for older patients with acute myeloid leukemia (AML) have remained dismal. This randomized, phase 2 trial in AML patients not considered suitable for intensive induction therapy compared low-dose cytarabine (LDAC) with or without volasertib, a highly potent and selective inhibitor of polo-like kinases. Eighty-seven patients (median age 75 years) received LDAC 20 mg twice daily subcutaneously days 1-10 or LDAC + volasertib 350 mg IV days 1 + 15 every 4 weeks. Response rate (complete remission and complete remission with incomplete blood count recovery) was higher for LDAC + volasertib vs LDAC (31.0% vs 13.3%; odds ratio, 2.91; P = .052). Responses in the LDAC + volasertib arm were observed across all genetic groups, including 5 of 14 patients with adverse cytogenetics. Median event-free survival was significantly prolonged by LDAC + volasertib compared with LDAC (5.6 vs 2.3 months; hazard ratio, 0.57; 95% confidence interval, 0.35-0.92; P = .021); median overall survival was 8.0 vs 5.2 months, respectively (hazard ratio, 0.63; 95% confidence interval, 0.40-1.00; P = .047). LDAC + volasertib led to an increased frequency of adverse events that was most pronounced for neutropenic fever/infections and gastrointestinal events; there was no increase in the death rate at days 60 + 90. This study was registered at www.clinicaltrials.gov as #NCT00804856.
    Keywords: Free Research Articles, Myeloid Neoplasia, Clinical Trials and Observations
    Print ISSN: 0006-4971
    Electronic ISSN: 1528-0020
    Topics: Biology , Medicine
    Published by American Society of Hematology (ASH)
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  • 7
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    Usefulness of Multiparental Populations of Maize (Zea mays L.) for Genome-Based Prediction [Multiparental Populations] (2014)
    Genetics Society of America (GSA)
    In: Genetics
    Details
    Publication Date: 2014-09-19
    Description: The efficiency of marker-assisted prediction of phenotypes has been studied intensively for different types of plant breeding populations. However, one remaining question is how to incorporate and counterbalance information from biparental and multiparental populations into model training for genome-wide prediction. To address this question, we evaluated testcross performance of 1652 doubled-haploid maize ( Zea mays L.) lines that were genotyped with 56,110 single nucleotide polymorphism markers and phenotyped for five agronomic traits in four to six European environments. The lines are arranged in two diverse half-sib panels representing two major European heterotic germplasm pools. The data set contains 10 related biparental dent families and 11 related biparental flint families generated from crosses of maize lines important for European maize breeding. With this new data set we analyzed genome-based best linear unbiased prediction in different validation schemes and compositions of estimation and test sets. Further, we theoretically and empirically investigated marker linkage phases across multiparental populations. In general, predictive abilities similar to or higher than those within biparental families could be achieved by combining several half-sib families in the estimation set. For the majority of families, 375 half-sib lines in the estimation set were sufficient to reach the same predictive performance of biomass yield as an estimation set of 50 full-sib lines. In contrast, prediction across heterotic pools was not possible for most cases. Our findings are important for experimental design in genome-based prediction as they provide guidelines for the genetic structure and required sample size of data sets used for model training.
    Print ISSN: 0016-6731
    Topics: Biology
    Published by Genetics Society of America (GSA)
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  • 8
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    Dopamine and Lipophilic Derivates Protect Cardiomyocytes against Cold Preservation Injury [Drug Discovery and Translational Medicine] (2013)
    The American Society for Pharmacology and Experimental Therapeutics
    Details
    Publication Date: 2013-12-16
    Description: Donor heart allografts are extremely susceptible to prolonged static cold storage. Because donor treatment with low-dose dopamine improves clinical outcome after heart transplantation, we tested the hypothesis that dopamine and its lipophilic derivate, N -octanoyl dopamine (NOD), protect cardiomyocytes from cold storage injury. Neonatal rat cardiomyocytes were treated with dopamine or NOD or left untreated and subsequently subjected to static cold storage (8–12 hours). Dopamine- and NOD-treated cardiomyocytes displayed a better viability compared with untreated cells after hypothermia. In untreated cardiomyocytes, cell damage was reflected by lactate dehydrogenase (LDH) release and a decrease in intracellular ATP. NOD was approximately 20-fold more potent than dopamine. Similarly to cardiomyocytes in vitro, rat hearts perfused with NOD before explantation showed significantly lower LDH release after static cold storage. ATP regeneration and spontaneous contractions after cold storage and rewarming only occurred in treated cardiomyocytes. Hypothermia severely attenuated isoprenaline-induced cAMP formation in control but not in dopamine- or NOD-treated cells. Esterified derivates of NOD with redox potential and lipophilic side chains reduced cell damage during cold storage similarly to NOD. In contrast to dopamine, neither NOD nor its derivates induced a significant β -adrenoceptor–mediated elevation of cellular cAMP levels. The β 1 -adrenoceptor antagonist atenolol and D 1 /D 2 receptor antagonist fluphenazine had no impact on the protective effect of NOD or dopamine. We conclude that dopamine as well as NOD treatment mitigates cold preservation injury to cardiomyocytes. The beneficial effects are independent of β -adrenoceptor or dopaminergic receptor stimulation but correlate with redox potential and lipophilic properties.
    Print ISSN: 0022-3565
    Electronic ISSN: 1521-0103
    Topics: Medicine
    Published by The American Society for Pharmacology and Experimental Therapeutics
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  • 9
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    Unwinding the differences of the mammalian PERIOD clock proteins from crystal structure to cellular function [Biochemistry] (2012)
    National Academy of Sciences
    Details
    Publication Date: 2012-02-29
    Description: The three PERIOD homologues mPER1, mPER2, and mPER3 constitute central components of the mammalian circadian clock. They contain two PAS (PER-ARNT-SIM) domains (PAS-A and PAS-B), which mediate homo- and heterodimeric mPER-mPER interactions as well as interactions with transcription factors and kinases. Here we present crystal structures of PAS domain fragments of mPER1 and mPER3 and compare them with the previously reported mPER2 structure. The structures reveal homodimers, which are mediated by interactions of the PAS-B β-sheet surface including a highly conserved tryptophan (Trp448mPER1, Trp419mPER2, Trp359mPER3). mPER1 homodimers are additionally stabilized by interactions between the PAS-A domains and mPER3 homodimers by an N-terminal region including a predicted helix-loop-helix motive. We have verified the existence of these homodimer interfaces in solution and inside cells using analytical gel filtration and luciferase complementation assays and quantified their contributions to homodimer stability by analytical ultracentrifugation. We also show by fluorescence recovery after photobleaching analyses that destabilization of the PAS-B/tryptophan dimer interface leads to a faster mobility of mPER2 containing complexes in human U2OS cells. Our study reveals structural and quantitative differences between the homodimeric interactions of the three mouse PERIOD homologues, which are likely to contribute to their distinct clock functions.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 10
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    Coherent two-dimensional nanoscopy (2011)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2011-08-13
    Description: We introduce a spectroscopic method that determines nonlinear quantum mechanical response functions beyond the optical diffraction limit and allows direct imaging of nanoscale coherence. In established coherent two-dimensional (2D) spectroscopy, four-wave-mixing responses are measured using three ingoing waves and one outgoing wave; thus, the method is diffraction-limited in spatial resolution. In coherent 2D nanoscopy, we use four ingoing waves and detect the final state via photoemission electron microscopy, which has 50-nanometer spatial resolution. We recorded local nanospectra from a corrugated silver surface and observed subwavelength 2D line shape variations. Plasmonic phase coherence of localized excitations persisted for about 100 femtoseconds and exhibited coherent beats. The observations are best explained by a model in which coupled oscillators lead to Fano-like resonances in the hybridized dark- and bright-mode response.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Aeschlimann, Martin -- Brixner, Tobias -- Fischer, Alexander -- Kramer, Christian -- Melchior, Pascal -- Pfeiffer, Walter -- Schneider, Christian -- Struber, Christian -- Tuchscherer, Philip -- Voronine, Dmitri V -- New York, N.Y. -- Science. 2011 Sep 23;333(6050):1723-6. doi: 10.1126/science.1209206. Epub 2011 Aug 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Fachbereich Physik and Research Center OPTIMAS, Technische Universitat Kaiserslautern, Erwin-Schrodinger-Str. 46, 67663 Kaiserslautern, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21835982" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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