1,233 research outputs found
Spin-orbit induced longitudinal spin-polarized currents in non-magnetic solids
For certain non-magnetic solids with low symmetry the occurrence of
spin-polarized longitudinal currents is predicted. These arise due to an
interplay of spin-orbit interaction and the particular crystal symmetry. This
result is derived using a group-theoretical scheme that allows investigating
the symmetry properties of any linear response tensor relevant to the field of
spintronics. For the spin conductivity tensor it is shown that only the
magnetic Laue group has to be considered in this context. Within the introduced
general scheme also the spin Hall- and additional related transverse effects
emerge without making reference to the two-current model. Numerical studies
confirm these findings and demonstrate for (AuPt)Sc that
the longitudinal spin conductivity may be in the same order of magnitude as the
conventional transverse one. The presented formalism only relies on the
magnetic space group and therefore is universally applicable to any type of
magnetic order.Comment: 5 pages, 1 table, 2 figures (3 & 2 subfigures
Thermal noise influences fluid flow in thin films during spinodal dewetting
Experiments on dewetting thin polymer films confirm the theoretical
prediction that thermal noise can strongly influence characteristic time-scales
of fluid flow and cause coarsening of typical length scales. Comparing the
experiments with deterministic simulations, we show that the Navier-Stokes
equation has to be extended by a conserved bulk noise term to accomplish the
observed spectrum of capillary waves. Due to thermal fluctuations the spectrum
changes from an exponential to a power law decay for large wavevectors. Also
the time evolution of the typical wavevector of unstable perturbations exhibits
noise induced coarsening that is absent in deterministic hydrodynamic flow.Comment: 4 pages, 3 figure
Reanalysis of the FEROS observations of HIP 11952
Aims. We reanalyze FEROS observations of the star HIP 11952 to reassess the
existence of the proposed planetary system. Methods. The radial velocity of the
spectra were measured by cross-correlating the observed spectrum with a
synthetic template. We also analyzed a large dataset of FEROS and HARPS
archival data of the calibrator HD 10700 spanning over more than five years. We
compared the barycentric velocities computed by the FEROS and HARPS pipelines.
Results. The barycentric correction of the FEROS-DRS pipeline was found to be
inaccurate and to introduce an artificial one-year period with a semi-amplitude
of 62 m/s. Thus the reanalysis of the FEROS data does not support the existence
of planets around HIP 11952.Comment: 7 pages, 8 figures, 1 tabl
Cardiac cell modelling: Observations from the heart of the cardiac physiome project
In this manuscript we review the state of cardiac cell modelling in the context of international initiatives such as the IUPS Physiome and Virtual Physiological Human Projects, which aim to integrate computational models across scales and physics. In particular we focus on the relationship between experimental data and model parameterisation across a range of model types and cellular physiological systems. Finally, in the context of parameter identification and model reuse within the Cardiac Physiome, we suggest some future priority areas for this field
Parameter Estimation of Ion Current Formulations Requires Hybrid Optimization Approach to Be Both Accurate and Reliable
Computational models of cardiac electrophysiology provided insights into arrhythmogenesis and paved the way toward tailored therapies in the last years. To fully leverage in silico models in future research, these models need to be adapted to reflect pathologies, genetic alterations, or pharmacological effects, however. A common approach is to leave the structure of established models unaltered and estimate the values of a set of parameters. Today’s high-throughput patch clamp data acquisition methods require robust, unsupervised algorithms that estimate parameters both accurately and reliably. In this work, two classes of optimization approaches are evaluated: gradient-based trust-region-reflective and derivative-free particle swarm algorithms. Using synthetic input data and different ion current formulations from the Courtemanche et al. electrophysiological model of human atrial myocytes, we show that neither of the two schemes alone succeeds to meet all requirements. Sequential combination of the two algorithms did improve the performance to some extent but not satisfactorily. Thus, we propose a novel hybrid approach coupling the two algorithms in each iteration. This hybrid approach yielded very accurate estimates with minimal dependency on the initial guess using synthetic input data for which a ground truth parameter set exists. When applied to measured data, the hybrid approach yielded the best fit, again with minimal variation. Using the proposed algorithm, a single run is sufficient to estimate the parameters. The degree of superiority over the other investigated algorithms in terms of accuracy and robustness depended on the type of current. In contrast to the non-hybrid approaches, the proposed method proved to be optimal for data of arbitrary signal to noise ratio. The hybrid algorithm proposed in this work provides an important tool to integrate experimental data into computational models both accurately and robustly allowing to assess the often non-intuitive consequences of ion channel-level changes on higher levels of integration
Parameter Estimation of Ion Current Formulations Requires Hybrid Optimization Approach to Be Both Accurate and Reliable
Computational models of cardiac electrophysiology provided insights into arrhythmogenesis and paved the way toward tailored therapies in the last years. To fully leverage in silico models in future research, these models need to be adapted to reflect pathologies, genetic alterations, or pharmacological effects, however. A common approach is to leave the structure of established models unaltered and estimate the values of a set of parameters. Today’s high-throughput patch clamp data acquisition methods require robust, unsupervised algorithms that estimate parameters both accurately and reliably. In this work, two classes of optimization approaches are evaluated: gradient-based trust-region-reflective and derivative-free particle swarm algorithms. Using synthetic input data and different ion current formulations from the Courtemanche et al. electrophysiological model of human atrial myocytes, we show that neither of the two schemes alone succeeds to meet all requirements. Sequential combination of the two algorithms did improve the performance to some extent but not satisfactorily. Thus, we propose a novel hybrid approach coupling the two algorithms in each iteration. This hybrid approach yielded very accurate estimates with minimal dependency on the initial guess using synthetic input data for which a ground truth parameter set exists. When applied to measured data, the hybrid approach yielded the best fit, again with minimal variation. Using the proposed algorithm, a single run is sufficient to estimate the parameters. The degree of superiority over the other investigated algorithms in terms of accuracy and robustness depended on the type of current. In contrast to the non-hybrid approaches, the proposed method proved to be optimal for data of arbitrary signal to noise ratio. The hybrid algorithm proposed in this work provides an important tool to integrate experimental data into computational models both accurately and robustly allowing to assess the often non-intuitive consequences of ion channel-level changes on higher levels of integration
Diffusive and ballistic current spin-polarization in magnetron-sputtered L1o-ordered epitaxial FePt
We report on the structural, magnetic, and electron transport properties of a
L1o-ordered epitaxial iron-platinum alloy layer fabricated by
magnetron-sputtering on a MgO(001) substrate. The film studied displayed a long
range chemical order parameter of S~0.90, and hence has a very strong
perpendicular magnetic anisotropy. In the diffusive electron transport regime,
for temperatures ranging from 2 K to 258 K, we found hysteresis in the
magnetoresistance mainly due to electron scattering from magnetic domain walls.
At 2 K, we observed an overall domain wall magnetoresistance of about 0.5 %. By
evaluating the spin current asymmetry alpha = sigma_up / sigma_down, we were
able to estimate the diffusive spin current polarization. At all temperatures
ranging from 2 K to 258 K, we found a diffusive spin current polarization of >
80%. To study the ballistic transport regime, we have performed point-contact
Andreev-reflection measurements at 4.2 K. We obtained a value for the ballistic
current spin polarization of ~42% (which compares very well with that of a
polycrystalline thin film of elemental Fe). We attribute the discrepancy to a
difference in the characteristic scattering times for oppositely spin-polarized
electrons, such scattering times influencing the diffusive but not the
ballistic current spin polarization.Comment: 22 pages, 13 figure
RNA secondary structure prediction from multi-aligned sequences
It has been well accepted that the RNA secondary structures of most
functional non-coding RNAs (ncRNAs) are closely related to their functions and
are conserved during evolution. Hence, prediction of conserved secondary
structures from evolutionarily related sequences is one important task in RNA
bioinformatics; the methods are useful not only to further functional analyses
of ncRNAs but also to improve the accuracy of secondary structure predictions
and to find novel functional RNAs from the genome. In this review, I focus on
common secondary structure prediction from a given aligned RNA sequence, in
which one secondary structure whose length is equal to that of the input
alignment is predicted. I systematically review and classify existing tools and
algorithms for the problem, by utilizing the information employed in the tools
and by adopting a unified viewpoint based on maximum expected gain (MEG)
estimators. I believe that this classification will allow a deeper
understanding of each tool and provide users with useful information for
selecting tools for common secondary structure predictions.Comment: A preprint of an invited review manuscript that will be published in
a chapter of the book `Methods in Molecular Biology'. Note that this version
of the manuscript may differ from the published versio
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