A Finite-field Approach for GWGW Calculations Beyond the Random Phase Approximation

We describe a finite-field approach to compute density response functions, which allows for efficient $G_0W_0$ and $G_0W_0\Gamma_0$ calculations beyond the random phase approximation. The method is easily applicable to density functional calculations performed with hybrid functionals. We present results for the electronic properties of molecules and solids and we discuss a general scheme to overcome slow convergence of quasiparticle energies obtained from $G_0W_0\Gamma_0$ calculations, as a function of the basis set used to represent the dielectric matrix

Rompiendo las barreras de la asignatura: herramientas útiles para el aprendizaje de competencias transversales

Los actuales planes de estudio, respondiendo a las directrices de Bolonia, incluyen de una manera u otra la enseñanza-aprendizaje de diversas competencias genéricas o transversales como la comunicación oral y escrita o el trabajo en equipo entre otras. Pero la estructura tradicional de los planes de estudio, basada fundamentalmente en un conjunto de asignaturas técnicas agrupadas en distintas áreas de conocimiento que se suceden siguiendo un orden determinado de requisitos, no facilita a nivel práctico la inclusión de las competencias transversales. En este trabajo se presentan algunos recursos que ayudan a organizar la enseñanza-aprendizaje de estas competencias a lo largo del plan de estudios. También se describe una experiencia de implementación en un grado de Ingeniería Informática. Los resultados obtenidos confirman la efectividad de los recursos planteados.SUMMARY -- The current curriculums include the teaching and learning of various generic skills such as oral and written communication and teamwork among others. But the traditional structure of the curriculum, mainly based on a set of technical subjects grouped in different areas of knowledge that occur in a specific order requirements, not easy at all to include generic skills. In this paper some resources that help organize the teaching and learning of these skills throughout the curriculum are presented. An experimental implementation is also described in a Computer Engineering degree. The results obtained confirm the effectiveness of the proposed resources

PyCDFT: A Python package for constrained density functional theory

We present PyCDFT, a Python package to compute diabatic states using constrained density functional theory (CDFT). PyCDFT provides an object-oriented, customizable implementation of CDFT, and allows for both single-point self-consistent-field calculations and geometry optimizations. PyCDFT is designed to interface with existing density functional theory (DFT) codes to perform CDFT calculations where constraint potentials are added to the Kohn-Sham Hamiltonian. Here we demonstrate the use of PyCDFT by performing calculations with a massively parallel first-principles molecular dynamics code, Qbox, and we benchmark its accuracy by computing the electronic coupling between diabatic states for a set of organic molecules. We show that PyCDFT yields results in agreement with existing implementations and is a robust and flexible package for performing CDFT calculations. The program is available at https://github.com/hema-ted/pycdft/.Comment: main text: 27 pages, 6 figures supplementary: 7 pages, 2 figure

Designing defect-based qubit candidates in wide-gap binary semiconductors for solid-state quantum technologies

The development of novel quantum bits is key to extend the scope of solid-state quantum information science and technology. Using first-principles calculations, we propose that large metal ion - vacancy complexes are promising qubit candidates in two binary crystals: 4H-SiC and w-AlN. In particular, we found that the formation of neutral Hf- and Zr-vacancy complexes is energetically favorable in both solids; these defects have spin-triplet ground states, with electronic structures similar to those of the diamond NV center and the SiC di-vacancy. Interestingly, they exhibit different spin-strain coupling characteristics, and the nature of heavy metal ions may allow for easy defect implantation in desired lattice locations and ensure stability against defect diffusion. In order to support future experimental identification of the proposed defects, we report predictions of their optical zero-phonon line, zero-field splitting and hyperfine parameters. The defect design concept identified here may be generalized to other binary semiconductors to facilitate the exploration of new solid-state qubits.Comment: 23 pages, 5 figures, 6 tables, Supplementary Information is added at the en

A finite field approach to solving the Bethe Salpeter equation

We present a method to compute optical spectra and exciton binding energies of molecules and solids based on the solution of the Bethe-Salpeter equation (BSE) and the calculation of the screened Coulomb interaction in finite field. The method does not require the explicit evaluation of dielectric matrices nor of virtual electronic states, and can be easily applied without resorting to the random phase approximation. In addition it utilizes localized orbitals obtained from Bloch states using bisection techniques, thus greatly reducing the complexity of the calculation and enabling the efficient use of hybrid functionals to obtain single particle wavefunctions. We report exciton binding energies of several molecules and absorption spectra of condensed systems of unprecedented size, including water and ice samples with hundreds of atoms

Structure of the substrate-engaged SecA-SecY protein translocation machine.

The Sec61/SecY channel allows the translocation of many proteins across the eukaryotic endoplasmic reticulum membrane or the prokaryotic plasma membrane. In bacteria, most secretory proteins are transported post-translationally through the SecY channel by the SecA ATPase. How a polypeptide is moved through the SecA-SecY complex is poorly understood, as structural information is lacking. Here, we report an electron cryo-microscopy (cryo-EM) structure of a translocating SecA-SecY complex in a lipid environment. The translocating polypeptide chain can be traced through both SecA and SecY. In the captured transition state of ATP hydrolysis, SecAs two-helix finger is close to the polypeptide, while SecAs clamp interacts with the polypeptide in a sequence-independent manner by inducing a short β-strand. Taking into account previous biochemical and biophysical data, our structure is consistent with a model in which the two-helix finger and clamp cooperate during the ATPase cycle to move a polypeptide through the channel

Combining polynomial chaos expansions and genetic algorithm for the coupling of electrophysiological models

The number of computational models in cardiac research has grown over the last decades. Every year new models with di erent assumptions appear in the literature dealing with di erences in interspecies cardiac properties. Generally, these new models update the physiological knowledge using new equations which reect better the molecular basis of process. New equations require the fi tting of parameters to previously known experimental data or even, in some cases, simulated data. This work studies and proposes a new method of parameter adjustment based on Polynomial Chaos and Genetic Algorithm to nd the best values for the parameters upon changes in the formulation of ionic channels. It minimizes the search space and the computational cost combining it with a Sensitivity Analysis. We use the analysis of di ferent models of L-type calcium channels to see that by reducing the number of parameters, the quality of the Genetic Algorithm dramatically improves. In addition, we test whether the use of the Polynomial Chaos Expansions improves the process of the Genetic Algorithm search. We conclude that it reduces the Genetic Algorithm execution in an order of 103 times in the case studied here, maintaining the quality of the results. We conclude that polynomial chaos expansions can improve and reduce the cost of parameter adjustment in the development of new models.Peer ReviewedPostprint (author's final draft

No role for muons in the DAMA annual modulation results

This paper gathers arguments and reasons why muons surviving the Gran Sasso mountain cannot mimic the Dark Matter annual modulation signature exploited by the DAMA/NaI and DAMA/LIBRA experiments. A number of these items have already been presented in individual papers. Further arguments have been addressed here in order to present a comprehensive collection and to enable a wider community to correctly approach this point.Comment: 26 pages, 9 figures. Few arguments added; version accepted for publication on Eur. Phys. J.