953 research outputs found
Domain-decomposed preconditionings for transport operators
The performance was tested of five different interface preconditionings for domain decomposed convection diffusion problems, including a novel one known as the spectral probe, while varying mesh parameters, Reynolds number, ratio of subdomain diffusion coefficients, and domain aspect ratio. The preconditioners are representative of the range of practically computable possibilities that have appeared in the domain decomposition literature for the treatment of nonoverlapping subdomains. It is shown that through a large number of numerical examples that no single preconditioner can be considered uniformly superior or uniformly inferior to the rest, but that knowledge of particulars, including the shape and strength of the convection, is important in selecting among them in a given problem
Sis1 potentiates the stress response to protein aggregation and elevated temperature
Cells adapt to conditions that compromise protein conformational stability by activating various stress response pathways, but the mechanisms used in sensing misfolded proteins remain unclear. Moreover, aggregates of disease proteins often fail to induce a productive stress response. Here, using a yeast model of polyQ protein aggregation, we identified Sis1, an essential Hsp40 co-chaperone of Hsp70, as a critical sensor of proteotoxic stress. At elevated levels, Sis1 prevented the formation of dense polyQ inclusions and directed soluble polyQ oligomers towards the formation of permeable condensates. Hsp70 accumulated in a liquid-like state within this polyQ meshwork, resulting in a potent activation of the HSF1 dependent stress response. Sis1, and the homologous DnaJB6 in mammalian cells, also regulated the magnitude of the cellular heat stress response, suggesting a general role in sensing protein misfolding. Sis1/DnaJB6 functions as a limiting regulator to enable a dynamic stress response and avoid hypersensitivity to environmental changes. Identifying factors that enable cells to induce a potent stress response to amyloid-like aggregation can provide further insight into the mechanism of stress regulation. Here, the authors express polyglutamine-expanded Huntingtin as a model disease protein in yeast cells and perform a genetic screen for chaperone factors that allow yeast cells to activate a potent stress response. They identify Sis1, an essential Hsp40 co-chaperone of Hsp70, as a critical sensor of proteotoxic stress and further show that both Sis1 and its mammalian homolog DnaJB6 regulate the magnitude of the cellular heat stress response, indicating that this mechanism is conserved.FRAP experiments were performed at the Max Planck Institute of Biochemistry Imaging Core Facility
Finding apparent horizons and other two-surfaces of constant expansion
Apparent horizons are structures of spacelike hypersurfaces that can be
determined locally in time. Closed surfaces of constant expansion (CE surfaces)
are a generalisation of apparent horizons. I present an efficient method for
locating CE surfaces. This method uses an explicit representation of the
surface, allowing for arbitrary resolutions and, in principle, shapes. The CE
surface equation is then solved as a nonlinear elliptic equation.
It is reasonable to assume that CE surfaces foliate a spacelike hypersurface
outside of some interior region, thus defining an invariant (but still
slicing-dependent) radial coordinate. This can be used to determine gauge modes
and to compare time evolutions with different gauge conditions. CE surfaces
also provide an efficient way to find new apparent horizons as they appear e.g.
in binary black hole simulations.Comment: 21 pages, 8 figures; two references adde
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Improving the Performance of Tensor Matrix Vector Multiplication in Quantum Chemistry Codes.
Cumulative reaction probability (CRP) calculations provide a viable computational approach to estimate reaction rate coefficients. However, in order to give meaningful results these calculations should be done in many dimensions (ten to fifteen). This makes CRP codes memory intensive. For this reason, these codes use iterative methods to solve the linear systems, where a good fraction of the execution time is spent on matrix-vector multiplication. In this paper, we discuss the tensor product form of applying the system operator on a vector. This approach shows much better performance and provides huge savings in memory as compared to the explicit sparse representation of the system matrix
R.A.Fisher, design theory, and the Indian connection
Design Theory, a branch of mathematics, was born out of the experimental
statistics research of the population geneticist R. A. Fisher and of Indian
mathematical statisticians in the 1930s. The field combines elements of
combinatorics, finite projective geometries, Latin squares, and a variety of
further mathematical structures, brought together in surprising ways. This
essay will present these structures and ideas as well as how the field came
together, in itself an interesting story.Comment: 11 pages, 3 figure
Polariton propagation in weak confinement quantum wells
Exciton-polariton propagation in a quantum well, under centre-of-mass
quantization, is computed by a variational self-consistent microscopic theory.
The Wannier exciton envelope functions basis set is given by the simple
analytical model of ref. [1], based on pure states of the centre-of-mass wave
vector, free from fitting parameters and "ad hoc" (the so called additional
boundary conditions-ABCs) assumptions. In the present paper, the former
analytical model is implemented in order to reproduce the centre-of-mass
quantization in a large range of quantum well thicknesses (5a_B < L < inf.).
The role of the dynamical transition layer at the well/barrier interfaces is
discussed at variance of the classical Pekar's dead-layer and ABCs. The Wannier
exciton eigenstates are computed, and compared with various theoretical models
with different degrees of accuracy. Exciton-polariton transmission spectra in
large quantum wells (L>> a_B) are computed and compared with experimental
results of Schneider et al.\cite{Schneider} in high quality GaAs samples. The
sound agreement between theory and experiment allows to unambiguously assign
the exciton-polariton dips of the transmission spectrum to the pure states of
the Wannier exciton center-of-mass quantization.Comment: 15 pages, 15 figures; will appear in Phys.Rev.
The effect of 12C + 12C rate uncertainties on the evolution and nucleosynthesis of massive stars
[Shortened] The 12C + 12C fusion reaction has been the subject of
considerable experimental efforts to constrain uncertainties at temperatures
relevant for stellar nucleosynthesis. In order to investigate the effect of an
enhanced carbon burning rate on massive star structure and nucleosynthesis, new
stellar evolution models and their yields are presented exploring the impact of
three different 12C + 12C reaction rates. Non-rotating stellar models were
generated using the Geneva Stellar Evolution Code and were later post-processed
with the NuGrid Multi-zone Post-Processing Network tool. The enhanced rate
causes core carbon burning to be ignited more promptly and at lower
temperature. This reduces the neutrino losses, which increases the core carbon
burning lifetime. An increased carbon burning rate also increases the upper
initial mass limit for which a star exhibits a convective carbon core. Carbon
shell burning is also affected, with fewer convective-shell episodes and
convection zones that tend to be larger in mass. Consequently, the chance of an
overlap between the ashes of carbon core burning and the following carbon shell
convection zones is increased, which can cause a portion of the ashes of carbon
core burning to be included in the carbon shell. Therefore, during the
supernova explosion, the ejecta will be enriched by s-process nuclides
synthesized from the carbon core s process. The yields were used to estimate
the weak s-process component in order to compare with the solar system
abundance distribution. The enhanced rate models were found to produce a
significant proportion of Kr, Sr, Y, Zr, Mo, Ru, Pd and Cd in the weak
component, which is primarily the signature of the carbon-core s process.
Consequently, it is shown that the production of isotopes in the Kr-Sr region
can be used to constrain the 12C + 12C rate using the current branching ratio
for a- and p-exit channels.Comment: The paper contains 17 figures and 7 tables. Table 7 will be published
in full online onl
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