Directional Soliton and Breather Beams

Solitons and breathers are nonlinear modes that exist in a wide range of physical systems. They are fundamental solutions of a number of nonlinear wave evolution equations, including the uni-directional nonlinear Schr\"odinger equation (NLSE). We report the observation of slanted solitons and breathers propagating at an angle with respect to the direction of propagation of the wave field. As the coherence is diagonal, the scale in the crest direction becomes finite, consequently, a beam dynamics forms. Spatio-temporal measurements of the water surface elevation are obtained by stereo-reconstructing the positions of the floating markers placed on a regular lattice and recorded with two synchronized high-speed cameras. Experimental results, based on the predictions obtained from the (2D+1) hyperbolic NLSE equation, are in excellent agreement with the theory. Our study proves the existence of such unique and coherent wave packets and has serious implications for practical applications in optical sciences and physical oceanography. Moreover, unstable wave fields in this geometry may explain the formation of directional large amplitude rogue waves with a finite crest length within a wide range of nonlinear dispersive media, such as Bose-Einstein condensates, plasma, hydrodynamics and optics

Experimental Study of Dispersion and Modulational Instability of Surface Gravity Waves on Constant Vorticity Currents

This paper examines experimentally the dispersion and stability of weakly nonlinear waves on opposing linearly vertically sheared current profiles (with constant vorticity). Measurements are compared against predictions from the unidirectional (1D + 1) constant vorticity nonlinear Schrödinger equation (the vor-NLSE) derived by Thomas et al. (Phys. Fluids, vol. 24, no. 12, 2012, 127102). The shear rate is negative in opposing currents when the magnitude of the current in the laboratory reference frame is negative (i.e. opposing the direction of wave propagation) and reduces with depth, as is most commonly encountered in nature. Compared to a uniform current with the same surface velocity, negative shear has the effect of increasing wavelength and enhancing stability. In experiments with a regular low-steepness wave, the dispersion relationship between wavelength and frequency is examined on five opposing current profiles with shear rates from 0 to −0.87 s−1. For all current profiles, the linear constant vorticity dispersion relation predicts the wavenumber to within the 95 % confidence bounds associated with estimates of shear rate and surface current velocity. The effect of shear on modulational instability was determined by the spectral evolution of a carrier wave seeded with spectral sidebands on opposing current profiles with shear rates between 0 and −0.48 s−1. Numerical solutions of the vor-NLSE are consistently found to predict sideband growth to within two standard deviations across repeated experiments, performing considerably better than its uniform-current NLSE counterpart. Similarly, the amplification of experimental wave envelopes is predicted well by numerical solutions of the vor-NLSE, and significantly over-predicted by the uniform-current NLSE

Genome-Wide Transcriptional Profiling Reveals MicroRNA-Correlated Genes and Biological Processes in Human Lymphoblastoid Cell Lines

Expression level of many genes shows abundant natural variation in human populations. The variations in gene expression are believed to contribute to phenotypic differences. Emerging evidence has shown that microRNAs (miRNAs) are one of the key regulators of gene expression. However, past studies have focused on the miRNA target genes and used loss- or gain-of-function approach that may not reflect natural association between miRNA and mRNAs.To examine miRNA regulatory effect on global gene expression under endogenous condition, we performed pair-wise correlation coefficient analysis on expression levels of 366 miRNAs and 14,174 messenger RNAs (mRNAs) in 90 immortalized lymphoblastoid cell lines, and observed significant correlations between the two species of RNA transcripts. We identified a total of 7,207 significantly correlated miRNA-mRNA pairs (false discovery rate q<0.01). Of those, 4,085 pairs showed positive correlations while 3,122 pairs showed negative correlations. Gene ontology analyses on the miRNA-correlated genes revealed significant enrichments in several biological processes related to cell cycle, cell communication and signal transduction. Individually, each of three miRNAs (miR-331, -98 and -33b) demonstrated significant correlation with the genes in cell cycle-related biological processes, which is consistent with important role of miRNAs in cell cycle regulation.This study demonstrates feasibility of using naturally expressed transcript profiles to identify endogenous correlation between miRNA and miRNA. By applying this genome-wide approach, we have identified thousands of miRNA-correlated genes and revealed potential role of miRNAs in several important cellular functions. The study results along with accompanying data sets will provide a wealth of high-throughput data to further evaluate the miRNA-regulated genes and eventually in phenotypic variations of human populations

Raphtory: The temporal graph engine for Rust and Python

Raphtory is a platform for building and analysing temporal networks. The library includes methods for creating networks from a variety of data sources; algorithms to explore their structure and evolution; and an extensible GraphQL server for deployment of applications built on top. Raphtory's core engine is built in Rust, for efficiency, with Python interfaces, for ease of use. Raphtory is developed by network scientists, with a background in Physics, Applied Mathematics, Engineering and Computer Science, for use across academia and industry

Hydrodynamic X Waves

Stationary wave groups exist in a range of nonlinear dispersive media, including optics, Bose-Einstein condensates, plasma, and hydrodynamics. We report experimental observations of nonlinear surface gravity X waves, i.e., X -shaped wave envelopes that propagate over long distances with constant form. These can be described by the 2 D + 1 nonlinear Schrödinger equation, which predicts a balance between dispersion and diffraction when the envelope (the arms of the X ) travel at ± arctan ( 1 / √ 2 ) ≈ ± 35.2 6 ° to the carrier wave. Our findings may help improve understanding the lifetime of extremes in directional seas and motivate further studies in other nonlinear dispersive media

A Roadmap for the Development of Ivermectin as a Complementary Malaria Vector Control Tool.

In the context of stalling progress against malaria, resistance of mosquitoes to insecticides, and residual transmission, mass drug administration (MDA) of ivermectin, an endectocide used for neglected tropical diseases (NTDs), has emerged as a promising complementary vector control method. Ivermectin reduces the life span of Anopheles mosquitoes that feed on treated humans and/or livestock, potentially decreasing malaria parasite transmission when administered at the community level. Following the publication by WHO of the preferred product characteristics for endectocides as vector control tools, this roadmap provides a comprehensive view of processes needed to make ivermectin available as a vector control tool by 2024 with a completely novel mechanism of action. The roadmap covers various aspects, which include 1) the definition of optimal dosage/regimens for ivermectin MDA in both humans and livestock, 2) the risk of resistance to the drug and environmental impact, 3) ethical issues, 4) political and community engagement, 5) translation of evidence into policy, and 6) operational aspects of large-scale deployment of the drug, all in the context of a drug given as a prevention tool acting at the community level. The roadmap reflects the insights of a multidisciplinary group of global health experts who worked together to elucidate the path to inclusion of ivermectin in the toolbox against malaria, to address residual transmission, counteract insecticide resistance, and contribute to the end of this deadly disease

A Gammaherpesvirus Complement Regulatory Protein Promotes Initiation of Infection by Activation of Protein Kinase Akt/PKB

BACKGROUND: Viruses have evolved to evade the host's complement system. The open reading frames 4 (ORF4) of gammaherpesviruses encode homologs of regulators of complement activation (RCA) proteins, which inhibit complement activation at the level of C3 and C4 deposition. Besides complement regulation, these proteins are involved in heparan sulfate and glycosaminoglycan binding, and in case of MHV-68, also in viral DNA synthesis in macrophages. METHODOLOGY/PRINCIPAL FINDINGS: Here, we made use of MHV-68 to study the role of ORF4 during infection of fibroblasts. While attachment and penetration of virions lacking the RCA protein were not affected, we observed a delayed delivery of the viral genome to the nucleus of infected cells. Analysis of the phosphorylation status of a variety of kinases revealed a significant reduction in phosphorylation of the protein kinase Akt in cells infected with ORF4 mutant virus, when compared to cells infected with wt virus. Consistent with a role of Akt activation in initial stages of infection, inhibition of Akt signaling in wt virus infected cells resulted in a phenotype resembling the phenotype of the ORF4 mutant virus, and activation of Akt by addition of insulin partially reversed the phenotype of the ORF4 mutant virus. Importantly, the homologous ORF4 of KSHV was able to rescue the phenotype of the MHV-68 ORF4 mutant, indicating that ORF4 is functionally conserved and that ORF4 of KSHV might have a similar function in infection initiation. CONCLUSIONS/SIGNIFICANCE: In summary, our studies demonstrate that ORF4 contributes to efficient infection by activation of the protein kinase Akt and thus reveal a novel function of a gammaherpesvirus RCA protein

The Campbells: lordship, literature and liminality

The Campbells have the potential to offer much to the theme of literature and borders, given that the kindred’s astonishing political success in the late medieval and early modern period depended heavily upon the ability to negotiate multiple frontiers: between Highlands and Lowlands; between Gaelic Scotland and Ireland, and, especially after the Reformation, with England and the matter of Britain. This paper will explore the literary dimension to Campbell expansionism, from the Book of the Dean of Lismore in the earlier sixteenth century, to poetry addressed to dukes of Argyll in the earlier eighteenth century. Particular attention will be paid to the literary proclivities of the household of the Campbells of Glenorchy on either side of what appears to be a major watershed in 1550; and to the agenda of the Campbell protégé John Carswell, first post-Reformation bishop of the Isles, and author of the first printed book in Gaelic in either Scotland or Ireland, Foirm na n-Urrnuidheadh (‘The Form of Prayers’), published at Edinburgh in 1567

Investigation of rheumatoid arthritis susceptibility loci in juvenile idiopathic arthritis confirms high degree of overlap

&lt;p&gt;Objectives: Rheumatoid arthritis (RA) shares some similar clinical and pathological features with juvenile idiopathic arthritis (JIA); indeed, the strategy of investigating whether RA susceptibility loci also confer susceptibility to JIA has already proved highly successful in identifying novel JIA loci. A plethora of newly validated RA loci has been reported in the past year. Therefore, the aim of this study was to investigate these single nucleotide polymorphisms (SNP) to determine if they were also associated with JIA.&lt;/p&gt; &lt;p&gt;Methods: Thirty-four SNP that showed validated association with RA and had not been investigated previously in the UK JIA cohort were genotyped in JIA cases (n=1242), healthy controls (n=4281), and data were extracted for approximately 5380 UK Caucasian controls from the Wellcome Trust Case–Control Consortium 2. Genotype and allele frequencies were compared between cases with JIA and controls using PLINK. A replication cohort of 813 JIA cases and 3058 controls from the USA was available for validation of any significant findings.&lt;/p&gt; &lt;p&gt;Results: Thirteen SNP showed significant association (p&#60;0.05) with JIA and for all but one the direction of association was the same as in RA. Of the eight loci that were tested, three showed significant association in the US cohort.&lt;/p&gt; &lt;p&gt;Conclusions: A novel JIA susceptibility locus was identified, CD247, which represents another JIA susceptibility gene whose protein product is important in T-cell activation and signalling. The authors have also confirmed association of the PTPN2 and IL2RA genes with JIA, both reaching genome-wide significance in the combined analysis.&lt;/p&gt