211 research outputs found
Epistemic Beliefs: Relationship to Future Expectancies and Quality of Life in Cancer Patients.
CONTEXT: Expectations about the future (future expectancies) are important determinants of psychological well-being among cancer patients, but the strategies patients use to maintain positive and cope with negative expectancies are incompletely understood.
OBJECTIVES: To obtain preliminary evidence on the potential role of one strategy for managing future expectancies: the adoption of epistemic beliefs in fundamental limits to medical knowledge.
METHODS: A sample of 1307 primarily advanced-stage cancer patients participating in a genomic tumor testing study in community oncology practices completed measures of epistemic beliefs, positive future expectancies, and mental and physical health-related quality of life (HRQOL). Descriptive and linear regression analyses were conducted to assess the relationships between these factors and test two hypotheses: 1) epistemic beliefs affirming fundamental limits to medical knowledge ( fallibilistic epistemic beliefs ) are associated with positive future expectancies and mental HRQOL, and 2) positive future expectancies mediate this association.
RESULTS: Participants reported relatively high beliefs in limits to medical knowledge (M = 2.94, s.d.=.67) and positive future expectancies (M = 3.01, s.d.=.62) (range 0-4), and relatively low mental and physical HRQOL. Consistent with hypotheses, fallibilistic epistemic beliefs were associated with positive future expectancies (b = 0.11, SE=.03, P\u3c 0.001) and greater mental HRQOL (b = 0.99, SE=.34, P = 0.004); positive expectancies also mediated the association between epistemic beliefs and mental HRQOL (Sobel Z=4.27, P\u3c0.001).
CONCLUSIONS: Epistemic beliefs in limits to medical knowledge are associated with positive future expectancies and greater mental HRQOL; positive expectancies mediate the association between epistemic beliefs and HRQOL. More research is needed to confirm these relationships and elucidate their causal mechanisms
Raman scattering in C_{60} and C_{48}N_{12} aza-fullerene: First-principles study
We carry out large scale {\sl ab initio} calculations of Raman scattering
activities and Raman-active frequencies (RAFs) in
aza-fullerene. The results are compared with those of .
Twenty-nine non-degenerate polarized and 29 doubly-degenerate unpolarized RAFs
are predicted for . The RAF of the strongest Raman
signal in the low- and high-frequency regions and the lowest and highest RAFs
for are almost the same as those of .
The study of reveals the importance of electron correlations and
the choice of basis sets in the {\sl ab initio} calculations. Our best
calculated results for with the B3LYP hybrid density functional
theory are in excellent agreement with experiment and demonstrate the desirable
efficiency and accuracy of this theory for obtaining quantitative information
on the vibrational properties of these molecules.Comment: submitted to Phys.Rev.
Dimerization and Fusion of two C60 Molecules
We investigate the dimerization and fusion of C60 molecules to form various
C60 dimers when pushed against each other at several inter-molecular distances.
We study the stability of this dimerized C60 molecule based on its binding
strength provided by intramolecular interactions. Tersoff potential, which is
considered to represent intramolecular interactions well, has been used to
calculate potential energy at these distances of separation and for all
possible orientations of the molecules. We observe that several minimum energy
configurations exist at various distances between the C60 molecules. Our
calculation shows that apart from the dumbbell structures, many interesting
composite phases also result, such as fused, peanut and carbon nanotubes of
geometry (5,5) and (10,0) of certain specific length.Comment: 18 pages and 8 figure
Electron affinities of the first- and second- row atoms: benchmark ab initio and density functional calculations
A benchmark ab initio and density functional (DFT) study has been carried out
on the electron affinities of the first- and second-row atoms. The ab initio
study involves basis sets of and quality, extrapolations to
the 1-particle basis set limit, and a combination of the CCSD(T), CCSDT, and
full CI electron correlation methods. Scalar relativistic and spin-orbit
coupling effects were taken into account. On average, the best ab initio
results agree to better than 0.001 eV with the most recent experimental
results. Correcting for imperfections in the CCSD(T) method improves the mean
absolute error by an order of magnitude, while for accurate results on the
second-row atoms inclusion of relativistic corrections is essential. The latter
are significantly overestimated at the SCF level; for accurate spin-orbit
splitting constants of second-row atoms inclusion of (2s,2p) correlation is
essential. In the DFT calculations it is found that results for the 1st-row
atoms are very sensitive to the exchange functional, while those for second-row
atoms are rather more sensitive to the correlation functional. While the LYP
correlation functional works best for first-row atoms, its PW91 counterpart
appears to be preferable for second-row atoms. Among ``pure DFT'' (nonhybrid)
functionals, G96PW91 (Gill 1996 exchange combined with Perdew-Wang 1991
correlation) puts in the best overall performance. The best results overall are
obtained with the 1-parameter hybrid modified Perdew-Wang (mPW1) exchange
functionals of Adamo and Barone [J. Chem. Phys. {\bf 108}, 664 (1998)], with
mPW1LYP yielding the best results for first-row, and mPW1PW91 for second-row
atoms. Indications exist that a hybrid of the type mPW1LYP +
mPW1PW91 yields better results than either of the constituent functionals.Comment: Phys. Rev. A, in press (revised version, review of issues concerning
DFT and electron affinities added
A mathematical and computational review of Hartree-Fock SCF methods in Quantum Chemistry
We present here a review of the fundamental topics of Hartree-Fock theory in
Quantum Chemistry. From the molecular Hamiltonian, using and discussing the
Born-Oppenheimer approximation, we arrive to the Hartree and Hartree-Fock
equations for the electronic problem. Special emphasis is placed in the most
relevant mathematical aspects of the theoretical derivation of the final
equations, as well as in the results regarding the existence and uniqueness of
their solutions. All Hartree-Fock versions with different spin restrictions are
systematically extracted from the general case, thus providing a unifying
framework. Then, the discretization of the one-electron orbitals space is
reviewed and the Roothaan-Hall formalism introduced. This leads to a exposition
of the basic underlying concepts related to the construction and selection of
Gaussian basis sets, focusing in algorithmic efficiency issues. Finally, we
close the review with a section in which the most relevant modern developments
(specially those related to the design of linear-scaling methods) are commented
and linked to the issues discussed. The whole work is intentionally
introductory and rather self-contained, so that it may be useful for non
experts that aim to use quantum chemical methods in interdisciplinary
applications. Moreover, much material that is found scattered in the literature
has been put together here to facilitate comprehension and to serve as a handy
reference.Comment: 64 pages, 3 figures, tMPH2e.cls style file, doublesp, mathbbol and
subeqn package
Hierarchy of nonhomologous end-joining, single-strand annealing and gene conversion at site-directed DNA double-strand breaks
In mammalian cells, DNA double-strand breaks (DSBs) are repaired by three pathways, nonhomologous end-joining (NHEJ), gene conversion (GC) and single-strand annealing (SSA). These pathways are distinct with regard to repair efficiency and mutagenic potential and must be tightly controlled to preserve viability and genomic stability. Here, we employed chromosomal reporter constructs to characterize the hierarchy of NHEJ, GC and SSA at a single I-SceI-induced DSB in Chinese hamster ovary cells. We discovered that the use of GC and SSA was increased by 6- to 8-fold upon loss of Ku80 function, suggesting that NHEJ is dominant over the other two pathways. However, NHEJ efficiency was not altered if GC was impaired by Rad51 knockdown. Interestingly, when SSA was made available as an alternative mode for DSB repair, loss of Rad51 function led to an increase in SSA activity at the expense of NHEJ, implying that Rad51 may indirectly promote NHEJ by limiting SSA. We conclude that a repair hierarchy exists to limit the access of the most mutagenic mechanism, SSA, to the break site. Furthermore, the cellular choice of repair pathways is reversible and can be influenced at the level of effector proteins such as Ku80 or Rad51
Alu distribution and mutation types of cancer genes
Background: Alu elements are the most abundant retrotransposable elements comprising ~11% of the human genome. Many studies have highlighted the role that Alu elements have in genetic instability and how their contribution to the assortment of mutagenic events can lead to cancer. As of yet, little has been done to quantitatively assess the association between Alu distribution and genes that are causally implicated in oncogenesis.Results: We have investigated the effect of various Alu densities on the mutation type based classifications of cancer genes. In order to establish the direct relationship between Alus and the cancer genes of interest, genome wide Alu-related densities were measured using genes rather than the sliding windows of fixed length as the units. Several novel genomic features, such as the density of the adjacent Alu pairs and the number of Alu-Exon-Alu triplets, were developed in order to extend the investigation via the multivariate statistical analysis toward more advanced biological insight. In addition, we characterized the genome-wide intron Alu distribution with a mixture model that distinguished genes containing Alu elements from those with no Alus, and evaluated the gene-level effect of the 5\u27-TTAAAA motif associated with Alu insertion sites using a two-step regression analysis method.Conclusions: The study resulted in several novel findings worthy of further investigation. They include: (1) Recessive cancer genes (tumor suppressor genes) are enriched with Alu elements (p \u3c 0.01) compared to dominant cancer genes (oncogenes) and the entire set of genes in the human genome; (2) Alu-related genomic features can be used to cluster cancer genes into biological meaningful groups; (3) The retention of exon Alus has been restricted in the human genome development, and an upper limit to the chromosome-level exon Alu densities is suggested by the distribution profile; (4) For the genes with at least one intron Alu repeat in individual chromosomes, the intron Alu densities can be well fitted by a Gamma distribution; (5) The effect of the 5\u27-TTAAAA motif on Alu densities varies across different chromosomes
Modelling fast forms of visual neural plasticity using a modified second-order motion energy model
The Adelson-Bergen motion energy sensor is well established as the leading model of low-level visual motion sensing in human vision. However, the standard model cannot predict adaptation effects in motion perception. A previous paper Pavan et al.(Journal of Vision 10:1-17, 2013) presented an extension to the model which uses a first-order RC gain-control circuit (leaky integrator) to implement adaptation effects which can span many seconds, and showed that the extended model's output is consistent with psychophysical data on the classic motion after-effect. Recent psychophysical research has reported adaptation over much shorter time periods, spanning just a few hundred milliseconds. The present paper further extends the sensor model to implement rapid adaptation, by adding a second-order RC circuit which causes the sensor to require a finite amount of time to react to a sudden change in stimulation. The output of the new sensor accounts accurately for psychophysical data on rapid forms of facilitation (rapid visual motion priming, rVMP) and suppression (rapid motion after-effect, rMAE). Changes in natural scene content occur over multiple time scales, and multi-stage leaky integrators of the kind proposed here offer a computational scheme for modelling adaptation over multiple time scales. © 2014 Springer Science+Business Media New York
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