1,454 research outputs found
Electronic redistribution around oxygen atoms in silicate melts by ab initio molecular dynamics simulation
The structure around oxygen atoms of four silicate liquids (silica, rhyolite,
a model basalt and enstatite) is evaluated by ab initio molecular dynamics
simulation. Thanks to the use of maximally localized Wannier orbitals to
represent the electronic ground state of the simulated system, one is able to
quantify the redistribution of electronic density around oxygen atoms as a
function of the cationic environment and melt composition. It is shown that the
structure of the melt in the immediate vicinity of the oxygen atoms modulates
the distribution of the Wannier orbitals associated with oxygen atoms. In
particular the evaluation of the distances between the oxygen-core and the
orbital Wannier centers and their evolution with the nature of the cation
indicates that the Al-O bond in silicate melts is certainly less covalent than
the Si-O bond while for the series Mg-O, Ca-O, Na-O and K-O the covalent
character of the M-O bond diminishes rapidly to the benefit of the ionic
character. Furthermore it is found that the distribution of the oxygen dipole
moment coming from the electronic polarization is only weakly dependent on the
melt composition, a finding which could explain why some empirical force fields
can exhibit a high degree of transferability with melt composition.Comment: 27 pages, 7 figures. To be published in Journal of Non-Crystalline
Solid
Supramolecular interactions in clusters of polar and polarizable molecules
We present a model for molecular materials made up of polar and polarizable
molecular units. A simple two state model is adopted for each molecular site
and only classical intermolecular interactions are accounted for, neglecting
any intermolecular overlap. The complex and interesting physics driven by
interactions among polar and polarizable molecules becomes fairly transparent
in the adopted model. Collective effects are recognized in the large variation
of the molecular polarity with supramolecular interactions, and cooperative
behavior shows up with the appearance, in attractive lattices, of discontinuous
charge crossovers. The mean-field approximation proves fairly accurate in the
description of the gs properties of MM, including static linear and non-linear
optical susceptibilities, apart from the region in the close proximity of the
discontinuous charge crossover. Sizeable deviations from the excitonic
description are recognized both in the excitation spectrum and in linear and
non-linear optical responses. New and interesting phenomena are recognized near
the discontinuous charge crossover for non-centrosymmetric clusters, where the
primary photoexcitation event corresponds to a multielectron transfer.Comment: 14 pages, including 11 figure
Hydrogen molecule in a magnetic field: The lowest states of the Pi manifold and the global ground state of the parallel configuration
The electronic structure of the hydrogen molecule in a magnetic field is
investigated for parallel internuclear and magnetic field axes. The lowest
states of the manifold are studied for spin singlet and triplet as well as gerade and ungerade parity for a broad range of field
strengths For both states with gerade parity we
observe a monotonous decrease in the dissociation energy with increasing field
strength up to and metastable states with respect to the
dissociation into two H atoms occur for a certain range of field strengths. For
both states with ungerade parity we observe a strong increase in the
dissociation energy with increasing field strength above some critical field
strength . As a major result we determine the transition field strengths
for the crossings among the lowest , and
states. The global ground state for is the strongly
bound state. The crossings of the with the
and state occur at and , respectively. The transition between the and
state occurs at Therefore, the global ground state of the
hydrogen molecule for the parallel configuration is the unbound
state for The ground state for is the strongly bound state. This result is of great
relevance to the chemistry in the atmospheres of magnetic white dwarfs and
neutron stars.Comment: submitted to Physical Review
CDH1 mutation distribution and type suggests genetic differences between the etiology of orofacial clefting and gastric cancer
Pathogenic variants in CDH1, encoding epithelial cadherin (E-cadherin), have been implicated in hereditary diffuse gastric cancer (HDGC), lobular breast cancer, and both syndromic and non-syndromic cleft lip/palate (CL/P). Despite the large number of CDH1 mutations described, the nature of the phenotypic consequence of such mutations is currently not able to be predicted, creating significant challenges for genetic counselling. This study collates the phenotype and molecular data for available CDH1 variants that have been classified, using the American College of Medical Genetics and Genomics criteria, as at least ‘likely pathogenic’, and correlates their molecular and structural characteristics to phenotype. We demonstrate that CDH1 variant type and location differ between HDGC and CL/P, and that there is clustering of CL/P variants within linker regions between the extracellular domains of the cadherin protein. While these differences do not provide for exact prediction of the phenotype for a given mutation, they may contribute to more accurate assessments of risk for HDGC or CL/P for individuals with specific CDH1 variants
The electronic structure of amorphous silica: A numerical study
We present a computational study of the electronic properties of amorphous
SiO2. The ionic configurations used are the ones generated by an earlier
molecular dynamics simulations in which the system was cooled with different
cooling rates from the liquid state to a glass, thus giving access to
glass-like configurations with different degrees of disorder [Phys. Rev. B 54,
15808 (1996)]. The electronic structure is described by a tight-binding
Hamiltonian. We study the influence of the degree of disorder on the density of
states, the localization properties, the optical absorption, the nature of
defects within the mobility gap, and on the fluctuations of the Madelung
potential, where the disorder manifests itself most prominently. The
experimentally observed mismatch between a photoconductivity threshold of 9 eV
and the onset of the optical absorption around 7 eV is interpreted by the
picture of eigenstates localized by potential energy fluctuations in a mobility
gap of approximately 9 eV and a density of states that exhibits valence and
conduction band tails which are, even in the absence of defects, deeply located
within the former band gap.Comment: 21 pages of Latex, 5 eps figure
Nucleation of a sodium droplet on C60
We investigate theoretically the progressive coating of C60 by several sodium
atoms. Density functional calculations using a nonlocal functional are
performed for NaC60 and Na2C60 in various configurations. These data are used
to construct an empirical atomistic model in order to treat larger sizes in a
statistical and dynamical context. Fluctuating charges are incorporated to
account for charge transfer between sodium and carbon atoms. By performing
systematic global optimization in the size range 1<=n<=30, we find that Na_nC60
is homogeneously coated at small sizes, and that a growing droplet is formed
above n=>8. The separate effects of single ionization and thermalization are
also considered, as well as the changes due to a strong external electric
field. The present results are discussed in the light of various experimental
data.Comment: 17 pages, 10 figure
Surface Core Level Shifts of Clean and Oxygen Covered Ru(0001)
We have performed high resolution XPS experiments of the Ru(0001) surface,
both clean and covered with well-defined amounts of oxygen up to 1 ML coverage.
For the clean surface we detected two distinct components in the Ru 3d_{5/2}
core level spectra, for which a definite assignment was made using the high
resolution Angle-Scan Photoelectron Diffraction approach. For the p(2x2),
p(2x1), (2x2)-3O and (1x1)-O oxygen structures we found Ru 3d_{5/2} core level
peaks which are shifted up to 1 eV to higher binding energies. Very good
agreement with density functional theory calculations of these Surface Core
Level Shifts (SCLS) is reported. The overriding parameter for the resulting Ru
SCLSs turns out to be the number of directly coordinated O atoms. Since the
calculations permit the separation of initial and final state effects, our
results give valuable information for the understanding of bonding and
screening at the surface, otherwise not accessible in the measurement of the
core level energies alone.Comment: 16 pages including 10 figures. Submitted to Phys. Rev. B. Related
publications can be found at http://www.fhi-berlin.mpg.de/th/paper.htm
Measurement of the scintillation time spectra and pulse-shape discrimination of low-energy beta and nuclear recoils in liquid argon with DEAP-1
The DEAP-1 low-background liquid argon detector was used to measure
scintillation pulse shapes of electron and nuclear recoil events and to
demonstrate the feasibility of pulse-shape discrimination (PSD) down to an
electron-equivalent energy of 20 keV.
In the surface dataset using a triple-coincidence tag we found the fraction
of beta events that are misidentified as nuclear recoils to be (90% C.L.) for energies between 43-86 keVee and for a nuclear recoil
acceptance of at least 90%, with 4% systematic uncertainty on the absolute
energy scale. The discrimination measurement on surface was limited by nuclear
recoils induced by cosmic-ray generated neutrons. This was improved by moving
the detector to the SNOLAB underground laboratory, where the reduced background
rate allowed the same measurement with only a double-coincidence tag.
The combined data set contains events. One of those, in the
underground data set, is in the nuclear-recoil region of interest. Taking into
account the expected background of 0.48 events coming from random pileup, the
resulting upper limit on the electronic recoil contamination is
(90% C.L.) between 44-89 keVee and for a nuclear recoil
acceptance of at least 90%, with 6% systematic uncertainty on the absolute
energy scale.
We developed a general mathematical framework to describe PSD parameter
distributions and used it to build an analytical model of the distributions
observed in DEAP-1. Using this model, we project a misidentification fraction
of approx. for an electron-equivalent energy threshold of 15 keV for
a detector with 8 PE/keVee light yield. This reduction enables a search for
spin-independent scattering of WIMPs from 1000 kg of liquid argon with a
WIMP-nucleon cross-section sensitivity of cm, assuming
negligible contribution from nuclear recoil backgrounds.Comment: Accepted for publication in Astroparticle Physic
Autosomal dominant craniometaphyseal dysplasia is caused by mutations in the transmembrane protein ANK
Craniometaphyseal dysplasia (CMD) is a rare skeletal disorder characterized by progressive thickening and increased mineral density of craniofacial bones and abnormally developed metaphyses in long bones. Linkage studies mapped the locus for the autosomal dominant form of CMD to an similar to5-cM interval on chromosome 5p, which is defined by recombinations between loci D5S810 and D5S1954. Mutational analysis of positional candidate genes was performed, and we describe herein three different mutations, in five different families and in isolated cases, in ANK, a multipass transmembrane protein involved in the transport of intracellular pyrophosphate into extracellular matrix. the mutations are two in-frame deletions and one in-frame insertion caused by a splicing defect. All mutations cluster within seven amino acids in one of the six possible cytosolic domains of ANK. These results suggest that the mutated protein has a dominant negative effect on the function of ANK, since reduced levels of pyrophosphate in bone matrix are known to increase mineralization.Harvard Sch Dent Med, Forsyth Inst, Harvard Forsyth Dept Oral Biol, Boston, MA 02115 USAHarvard Univ, Sch Med, Childrens Hosp, Dept Cell Biol, Boston, MA USAHarvard Univ, Sch Med, Childrens Hosp, Dept Genet, Boston, MA USAHarvard Univ, Sch Med, Childrens Hosp, Div Plast Surg, Boston, MA USAUniversidade Federal de São Paulo, EPM, Campinas, SP, BrazilInst Cirurg Plast Craniofacial SOBRAPAR, Campinas, SP, BrazilShowa Univ, Sch Med, Dept Plast & Reconstruct Surg, Tokyo 142, JapanVirginia Commonwealth Univ, Med Coll Virginia, Dept Human Genet, Richmond, VA 23298 USASt Louis Univ, Sch Med, Cardinal Glennon Childrens Hosp, Div Med Genet, St Louis, MO 63104 USAUniv Cape Town, Sch Med, Dept Human Genet, ZA-7925 Cape Town, South AfricaOhio State Univ, Coll Dent, Dept Orthodont, Columbus, OH 43210 USAChildrens Hosp, Dept Genet, Columbus, OH 43205 USAUniv Minnesota, Sch Dent, Dept Oral Biol & Genet, Minneapolis, MN 55455 USAUniversidade Federal de São Paulo, EPM, Campinas, SP, BrazilWeb of Scienc
- …