441 research outputs found
The Study of Goldstone Modes in =2 Bilayer Quantum Hall Systems
At the filling factor =2, the bilayer quantum Hall system has three
phases, the spin-ferromagnet phase, the spin singlet phase and the canted
antiferromagnet (CAF) phase, depending on the relative strength between the
Zeeman energy and interlayer tunneling energy. We present a systematic method
to derive the effective Hamiltonian for the Goldstone modes in these three
phases. We then investigate the dispersion relations and the coherence lengths
of the Goldstone modes. To explore a possible emergence of the interlayer phase
coherence, we analyze the dispersion relations in the zero tunneling energy
limit. We find one gapless mode with the linear dispersion relation in the CAF
phase.Comment: 13 pages, no figures. One reference is added. Typos correcte
Redshift-distance Survey of Early-type Galaxies: The D_n-sigma Relation
In this paper R-band photometric and velocity dispersion measurements for a
sample of 452 elliptical and S0 galaxies in 28 clusters are used to construct a
template D_n-sigma relation. This template relation is constructed by combining
the data from the 28 clusters, under the assumption that galaxies in different
clusters have similar properties. The photometric and spectroscopic data used
consist of new as well as published measurements, converted to a common system,
as presented in a accompanying paper. The resulting direct relation, corrected
for incompleteness bias, is log{D_n} =1.203 log{sigma} + 1.406; the zero-point
has been defined by requiring distant clusters to be at rest relative to the
CMB. This zero-point is consistent with the value obtained by using the
distance to Virgo as determined by the Cepheid period-luminosity relation. This
new D_n-sigma relation leads to a peculiar velocity of -72 (\pm 189) km/s for
the Coma cluster. The scatter in the distance relation corresponds to a
distance error of about 20%, comparable to the values obtained for the
Fundamental Plane relation. Correlations between the scatter and residuals of
the D_n-sigma relation with other parameters that characterize the cluster
and/or the galaxy stellar population are also analyzed. The direct and inverse
relations presented here have been used in recent studies of the peculiar
velocity field mapped by the ENEAR all-sky sample.Comment: 46 pages, 20 figures, and 7 tables. To appear in AJ, vol. 123, no. 5,
May 200
Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
BACKGROUND: Protein-protein interactions are critical for cellular functions. Recently developed computational approaches for predicting protein-protein interactions utilize co-evolutionary information of the interacting partners, e.g., correlations between distance matrices, where each matrix stores the pairwise distances between a protein and its orthologs from a group of reference genomes. RESULTS: We proposed a novel, simple method to account for some of the intra-matrix correlations in improving the prediction accuracy. Specifically, the phylogenetic species tree of the reference genomes is used as a guide tree for hierarchical clustering of the orthologous proteins. The distances between these clusters, derived from the original pairwise distance matrix using the Neighbor Joining algorithm, form intermediate distance matrices, which are then transformed and concatenated into a super phylogenetic vector. A support vector machine is trained and tested on pairs of proteins, represented as super phylogenetic vectors, whose interactions are known. The performance, measured as ROC score in cross validation experiments, shows significant improvement of our method (ROC score 0.8446) over that of using Pearson correlations (0.6587). CONCLUSION: We have shown that the phylogenetic tree can be used as a guide to extract intra-matrix correlations in the distance matrices of orthologous proteins, where these correlations are represented as intermediate distance matrices of the ancestral orthologous proteins. Both the unsupervised and supervised learning paradigms benefit from the explicit inclusion of these intermediate distance matrices, and particularly so in the latter case, which offers a better balance between sensitivity and specificity in the prediction of protein-protein interactions
Recent Advances in Graph Partitioning
We survey recent trends in practical algorithms for balanced graph
partitioning together with applications and future research directions
Performance of the CMS Cathode Strip Chambers with Cosmic Rays
The Cathode Strip Chambers (CSCs) constitute the primary muon tracking device
in the CMS endcaps. Their performance has been evaluated using data taken
during a cosmic ray run in fall 2008. Measured noise levels are low, with the
number of noisy channels well below 1%. Coordinate resolution was measured for
all types of chambers, and fall in the range 47 microns to 243 microns. The
efficiencies for local charged track triggers, for hit and for segments
reconstruction were measured, and are above 99%. The timing resolution per
layer is approximately 5 ns
False positive reduction in protein-protein interaction predictions using gene ontology annotations
<p>Abstract</p> <p>Background</p> <p>Many crucial cellular operations such as metabolism, signalling, and regulations are based on protein-protein interactions. However, the lack of robust protein-protein interaction information is a challenge. One reason for the lack of solid protein-protein interaction information is poor agreement between experimental findings and computational sets that, in turn, comes from huge false positive predictions in computational approaches. Reduction of false positive predictions and enhancing true positive fraction of computationally predicted protein-protein interaction datasets based on highly confident experimental results has not been adequately investigated.</p> <p>Results</p> <p>Gene Ontology (GO) annotations were used to reduce false positive protein-protein interactions (PPI) pairs resulting from computational predictions. Using experimentally obtained PPI pairs as a training dataset, eight top-ranking keywords were extracted from GO molecular function annotations. The sensitivity of these keywords is 64.21% in the yeast experimental dataset and 80.83% in the worm experimental dataset. The specificities, a measure of recovery power, of these keywords applied to four predicted PPI datasets for each studied organisms, are 48.32% and 46.49% (by average of four datasets) in yeast and worm, respectively. Based on eight top-ranking keywords and co-localization of interacting proteins a set of two knowledge rules were deduced and applied to remove false positive protein pairs. The '<it>strength</it>', a measure of improvement provided by the rules was defined based on the signal-to-noise ratio and implemented to measure the applicability of knowledge rules applying to the predicted PPI datasets. Depending on the employed PPI-predicting methods, the <it>strength </it>varies between two and ten-fold of randomly removing protein pairs from the datasets.</p> <p>Conclusion</p> <p>Gene Ontology annotations along with the deduced knowledge rules could be implemented to partially remove false predicted PPI pairs. Removal of false positives from predicted datasets increases the true positive fractions of the datasets and improves the robustness of predicted pairs as compared to random protein pairing, and eventually results in better overlap with experimental results.</p
Study of the collagen structure in the superficial zone and physiological state of articular cartilage using a 3D confocal imaging technique
A review of elliptical and disc galaxy structure, and modern scaling laws
A century ago, in 1911 and 1913, Plummer and then Reynolds introduced their
models to describe the radial distribution of stars in `nebulae'. This article
reviews the progress since then, providing both an historical perspective and a
contemporary review of the stellar structure of bulges, discs and elliptical
galaxies. The quantification of galaxy nuclei, such as central mass deficits
and excess nuclear light, plus the structure of dark matter halos and cD galaxy
envelopes, are discussed. Issues pertaining to spiral galaxies including dust,
bulge-to-disc ratios, bulgeless galaxies, bars and the identification of
pseudobulges are also reviewed. An array of modern scaling relations involving
sizes, luminosities, surface brightnesses and stellar concentrations are
presented, many of which are shown to be curved. These 'redshift zero'
relations not only quantify the behavior and nature of galaxies in the Universe
today, but are the modern benchmark for evolutionary studies of galaxies,
whether based on observations, N-body-simulations or semi-analytical modelling.
For example, it is shown that some of the recently discovered compact
elliptical galaxies at 1.5 < z < 2.5 may be the bulges of modern disc galaxies.Comment: Condensed version (due to Contract) of an invited review article to
appear in "Planets, Stars and Stellar
Systems"(www.springer.com/astronomy/book/978-90-481-8818-5). 500+ references
incl. many somewhat forgotten, pioneer papers. Original submission to
Springer: 07-June-201
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