Geometrical entanglement of highly symmetric multipartite states and the Schmidt decomposition

In a previous paper we examined a geometric measure of entanglement based on the minimum distance between the entangled target state of interest and the space of unnormalized product states. Here we present a detailed study of this entanglement measure for target states with a large degree of symmetry. We obtain analytic solutions for the extrema of the distance function and solve for the Hessian to show that, up to the action of trivial symmetries, the solutions correspond to local minima of the distance function. In addition, we show that the conditions that determine the extremal solutions for general target states can be obtained directly by parametrizing the product states via their Schmidt decomposition.Comment: 16 pages, references added and discussion expande

Submarine groundwater discharge to a small estuary estimated from radon and salinity measurements and a box model

Author Posting. © 2005 Author(s). This work is licensed under a Creative Commons License. The definitive version was published Biogeosciences 2 (2005): 141-157, doi:10.5194/bg-2-141-2005.Submarine groundwater discharge was quantified by a variety of methods for a 4-day period during the early summer of 2004, in Salt Pond, adjacent to Nauset Marsh, on Cape Cod, USA. Discharge estimates based on radon and salinity took advantage of the presence of the narrow channel connecting Salt Pond to Nauset Marsh, which allowed constructing whole-pond mass balances as water flowed in and out due to tidal fluctuations. The data suggest that less than one quarter of the discharge in the vicinity of Salt Pond happened within the pond itself, while three quarters or more of the discharge occurred immediately seaward of the pond, either in the channel or in adjacent regions of Nauset Marsh. Much of this discharge, which maintains high radon activities and low salinity, is carried into the pond during each incoming tide. A box model was used as an aid to understand both the rates and the locations of discharge in the vicinity of Salt Pond. The model achieves a reasonable fit to both the salinity and radon data assuming submarine groundwater discharge is fresh and that most of it occurs either in the channel or in adjacent regions of Nauset Marsh. Salinity and radon data, together with seepage meter results, do not rule out discharge of saline groundwater, but suggest either that the saline discharge is at most comparable in volume to the fresh discharge or that it is depleted in radon. The estimated rate of fresh groundwater discharge in the vicinity of Salt Pond is 3000-7000 m3 d-1. This groundwater flux estimated from the radon and salinity data is comparable to a value of 3200-4500 m3 d-1 predicted by a recent hydrologic model (Masterson, 2004; Colman and Masterson, 2004), although the model predicts this rate of discharge to the pond whereas our data suggest most of the groundwater bypasses the pond prior to discharge. Additional work is needed to determine if the measured rate of discharge is representative of the long-term average, and to better constrain the rate of groundwater discharge seaward of Salt Pond.Financial support was provided by the US Geological Survey and by National Science Foundation grant #OCE-0346933 to MAC

The dynamics of the 3D radial NLS with the combined terms

In this paper, we show the scattering and blow-up result of the radial solution with the energy below the threshold for the nonlinear Schr\"{o}dinger equation (NLS) with the combined terms iu_t + \Delta u = -|u|^4u + |u|^2u \tag{CNLS} in the energy space $H^1(\R^3)$. The threshold is given by the ground state $W$ for the energy-critical NLS: $iu_t + \Delta u = -|u|^4u$. This problem was proposed by Tao, Visan and Zhang in \cite{TaoVZ:NLS:combined}. The main difficulty is the lack of the scaling invariance. Illuminated by \cite{IbrMN:f:NLKG}, we need give the new radial profile decomposition with the scaling parameter, then apply it into the scattering theory. Our result shows that the defocusing, $\dot H^1$-subcritical perturbation $|u|^2u$ does not affect the determination of the threshold of the scattering solution of (CNLS) in the energy space.Comment: 46page

HCMV Spread and Cell Tropism are Determined by Distinct Virus Populations

Human cytomegalovirus (HCMV) can infect many different cell types in vivo. Two gH/gL complexes are used for entry into cells. gH/gL/pUL(128,130,131A) shows no selectivity for its host cell, whereas formation of a gH/gL/gO complex only restricts the tropism mainly to fibroblasts. Here, we describe that depending on the cell type in which virus replication takes place, virus carrying the gH/gL/pUL(128,130,131A) complex is either released or retained cell-associated. We observed that virus spread in fibroblast cultures was predominantly supernatant-driven, whereas spread in endothelial cell (EC) cultures was predominantly focal. This was due to properties of virus released from fibroblasts and EC. Fibroblasts released virus which could infect both fibroblasts and EC. In contrast, EC released virus which readily infected fibroblasts, but was barely able to infect EC. The EC infection capacities of virus released from fibroblasts or EC correlated with respectively high or low amounts of gH/gL/pUL(128,130,131A) in virus particles. Moreover, we found that focal spread in EC cultures could be attributed to EC-tropic virus tightly associated with EC and not released into the supernatant. Preincubation of fibroblast-derived virus progeny with EC or beads coated with pUL131A-specific antibodies depleted the fraction that could infect EC, and left a fraction that could predominantly infect fibroblasts. These data strongly suggest that HCMV progeny is composed of distinct virus populations. EC specifically retain the EC-tropic population, whereas fibroblasts release EC-tropic and non EC-tropic virus. Our findings offer completely new views on how HCMV spread may be controlled by its host cells

Genetic Associations with Gestational Duration and Spontaneous Preterm Birth

BACKGROUND Despite evidence that genetic factors contribute to the duration of gestation and the risk of preterm birth, robust associations with genetic variants have not been identified. We used large data sets that included the gestational duration to determine possible genetic associations. METHODS We performed a genomewide association study in a discovery set of samples obtained from 43,568 women of European ancestry using gestational duration as a continuous trait and term or preterm (<37 weeks) birth as a dichotomous outcome. We used samples from three Nordic data sets (involving a total of 8643 women) to test for replication of genomic loci that had significant genomewide association (P<5.0x10(-8)) or an association with suggestive significance (P<1.0x10(-6)) in the discovery set. RESULTS In the discovery and replication data sets, four loci (EBF1, EEFSEC, AGTR2, and WNT4) were significantly associated with gestational duration. Functional analysis showed that an implicated variant in WNT4 alters the binding of the estrogen receptor. The association between variants in ADCY5 and RAP2C and gestational duration had suggestive significance in the discovery set and significant evidence of association in the replication sets; these variants also showed genomewide significance in a joint analysis. Common variants in EBF1, EEFSEC, and AGTR2 showed association with preterm birth with genomewide significance. An analysis of mother-infant dyads suggested that these variants act at the level of the maternal genome. CONCLUSIONS In this genomewide association study, we found that variants at the EBF1, EEFSEC, AGTR2, WNT4, ADCY5, and RAP2C loci were associated with gestational duration and variants at the EBF1, EEFSEC, and AGTR2 loci with preterm birth. Previously established roles of these genes in uterine development, maternal nutrition, and vascular control support their mechanistic involvement.Peer reviewe

Structural characteristics and antiviral activity of multiple peptides derived from MDV glycoproteins B and H

<p>Abstract</p> <p>Background</p> <p>Marek's disease virus (MDV), which is widely considered to be a natural model of virus-induced lymphoma, has the potential to cause tremendous losses in the poultry industry. To investigate the structural basis of MDV membrane fusion and to identify new viral targets for inhibition, we examined the domains of the MDV glycoproteins gH and gB.</p> <p>Results</p> <p>Four peptides derived from the MDV glycoprotein gH (gHH1, gHH2, gHH3, and gHH5) and one peptide derived from gB (gBH1) could efficiently inhibit plaque formation in primary chicken embryo fibroblast cells (CEFs) with 50% inhibitory concentrations (IC₅₀) of below 12 μM. These peptides were also significantly able to reduce lesion formation on chorioallantoic membranes (CAMs) of infected chicken embryos at a concentration of 0.5 mM in 60 μl of solution. The HR2 peptide from Newcastle disease virus (NDVHR2) exerted effects on MDV specifically at the stage of virus entry (i.e., in a cell pre-treatment assay and an embryo co-treatment assay), suggesting cross-inhibitory effects of NDV HR2 on MDV infection. None of the peptides exhibited cytotoxic effects at the concentrations tested. Structural characteristics of the five peptides were examined further.</p> <p>Conclusions</p> <p>The five MDV-derived peptides demonstrated potent antiviral activity, not only in plaque formation assays in vitro, but also in lesion formation assays in vivo. The present study examining the antiviral activity of these MDV peptides, which are useful as small-molecule antiviral inhibitors, provides information about the MDV entry mechanism.</p

MMP-8 Deficiency Increases TLR/RAGE Ligands S100A8 and S100A9 and Exacerbates Lung Inflammation during Endotoxemia

Matrix metalloproteinase-8, released mainly from neutrophils, is a critical regulator of the inflammatory response by its ability to cleave multiple mediators. Herein, we report the results of a model of endotoxemia after intraperitoneal LPS injection in mice lacking MMP-8 and their wildtype counterparts. Control, saline-treated animals showed no differences between genotypes. However, there was an increased lung inflammatory response, with a prominent neutrophilic infiltration in mutant animals after LPS treatment. Using a proteomic approach, we identify alarmins S100A8 and S100A9 as two of the main differences between genotypes. Mice lacking MMP-8 showed a significant increase in these two molecules in lung homogenates, but not in spleen and serum. Mice lacking MMP-8 also showed an increase in MIP-1α levels and a marked activation of the non-canonical NF-κB pathway, with no differences in CXC-chemokines such as MIP-2 or LIX. These results show that MMP-8 can modulate the levels of S100A8 and S100A9 and its absence promotes the lung inflammatory response during endotoxemia

An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge

BACKGROUND: There is tremendous potential for genome sequencing to improve clinical diagnosis and care once it becomes routinely accessible, but this will require formalizing research methods into clinical best practices in the areas of sequence data generation, analysis, interpretation and reporting. The CLARITY Challenge was designed to spur convergence in methods for diagnosing genetic disease starting from clinical case history and genome sequencing data. DNA samples were obtained from three families with heritable genetic disorders and genomic sequence data was donated by sequencing platform vendors. The challenge was to analyze and interpret these data with the goals of identifying disease causing variants and reporting the findings in a clinically useful format. Participating contestant groups were solicited broadly, and an independent panel of judges evaluated their performance. RESULTS: A total of 30 international groups were engaged. The entries reveal a general convergence of practices on most elements of the analysis and interpretation process. However, even given this commonality of approach, only two groups identified the consensus candidate variants in all disease cases, demonstrating a need for consistent fine-tuning of the generally accepted methods. There was greater diversity of the final clinical report content and in the patient consenting process, demonstrating that these areas require additional exploration and standardization. CONCLUSIONS: The CLARITY Challenge provides a comprehensive assessment of current practices for using genome sequencing to diagnose and report genetic diseases. There is remarkable convergence in bioinformatic techniques, but medical interpretation and reporting are areas that require further development by many groups