Parabolic free boundary price formation models under market size fluctuations

In this paper we propose an extension of the Lasry-Lions price formation model which includes fluctuations of the numbers of buyers and vendors. We analyze the model in the case of deterministic and stochastic market size fluctuations and present results on the long time asymptotic behavior and numerical evidence and conjectures on periodic, almost periodic and stochastic fluctuations. The numerical simulations extend the theoretical statements and give further insights into price formation dynamics

Coherently controlled entanglement generation in a binary Bose-Einstein condensate

Considering a two-component Bose-Einstein condensate in a double-well potential, a method to generate a Bell state consisting of two spatially separated condensates is suggested. For repulsive interactions, the required tunnelling control is achieved numerically by varying the amplitude of a sinusoidal potential difference between the wells. Both numerical and analytical calculations reveal the emergence of a highly entangled mesoscopic state.Comment: 6 pages, 6 figures, epl2.cl

The developmental expression dynamics of Drosophila melanogaster transcription factors.

BACKGROUND: Site-specific transcription factors (TFs) are coordinators of developmental and physiological gene expression programs. Their binding to cis-regulatory modules of target genes mediates the precise cell- and context-specific activation and repression of genes. The expression of TFs should therefore reflect the core expression program of each cell. RESULTS: We studied the expression dynamics of about 750 TFs using the available genomics resources in Drosophila melanogaster. We find that 95% of these TFs are expressed at some point during embryonic development, with a peak roughly between 10 and 12 hours after egg laying, the core stages of organogenesis. We address the differential utilization of DNA-binding domains in different developmental programs systematically in a spatio-temporal context, and show that the zinc finger class of TFs is predominantly early expressed, while Homeobox TFs exhibit later expression in embryogenesis. CONCLUSIONS: Previous work, dissecting cis-regulatory modules during Drosophila development, suggests that TFs are deployed in groups acting in a cooperative manner. In contrast, we find that there is rapid exchange of co-expressed partners amongst the fly TFs, at rates similar to the genome-wide dynamics of co-expression clusters. This suggests there may also be a high level of combinatorial complexity of TFs at cis-regulatory modules.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Protein domain organisation: adding order.

BACKGROUND: Domains are the building blocks of proteins. During evolution, they have been duplicated, fused and recombined, to produce proteins with novel structures and functions. Structural and genome-scale studies have shown that pairs or groups of domains observed together in a protein are almost always found in only one N to C terminal order and are the result of a single recombination event that has been propagated by duplication of the multi-domain unit. Previous studies of domain organisation have used graph theory to represent the co-occurrence of domains within proteins. We build on this approach by adding directionality to the graphs and connecting nodes based on their relative order in the protein. Most of the time, the linear order of domains is conserved. However, using the directed graph representation we have identified non-linear features of domain organization that are over-represented in genomes. Recognising these patterns and unravelling how they have arisen may allow us to understand the functional relationships between domains and understand how the protein repertoire has evolved. RESULTS: We identify groups of domains that are not linearly conserved, but instead have been shuffled during evolution so that they occur in multiple different orders. We consider 192 genomes across all three kingdoms of life and use domain and protein annotation to understand their functional significance. To identify these features and assess their statistical significance, we represent the linear order of domains in proteins as a directed graph and apply graph theoretical methods. We describe two higher-order patterns of domain organisation: clusters and bi-directionally associated domain pairs and explore their functional importance and phylogenetic conservation. CONCLUSION: Taking into account the order of domains, we have derived a novel picture of global protein organization. We found that all genomes have a higher than expected degree of clustering and more domain pairs in forward and reverse orientation in different proteins relative to random graphs with identical degree distributions. While these features were statistically over-represented, they are still fairly rare. Looking in detail at the proteins involved, we found strong functional relationships within each cluster. In addition, the domains tended to be involved in protein-protein interaction and are able to function as independent structural units. A particularly striking example was the human Jak-STAT signalling pathway which makes use of a set of domains in a range of orders and orientations to provide nuanced signaling functionality. This illustrated the importance of functional and structural constraints (or lack thereof) on domain organisation.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Methods of recovery technical equipment of the city by using new trends

The article deals with the current state of technical equipment of the city, which today is generally in very poor condition. The article also discusses the current unsatisfactory conceptual and coordination solution of engineering network, there are described various reasons why accede to restore technical equipment of the city, and on this basis are described of the possibility of restoration of these buildings with the use of new trends in the field of engineering networ

Functional protein divergence in the evolution of Homo sapiens.

BACKGROUND: Protein-coding regions in a genome evolve by sequence divergence and gene gain and loss, altering the gene content of the organism. However, it is not well understood how this has given rise to the enormous diversity of metazoa present today. RESULTS: To obtain a global view of human genomic evolution, we quantify the divergence of proteins by functional category at different evolutionary distances from human. CONCLUSION: This analysis highlights some general systems-level characteristics of human evolution: regulatory processes, such as signal transducers, transcription factors and receptors, have a high degree of plasticity, while core processes, such as metabolism, transport and protein synthesis, are largely conserved. Additionally, this study reveals a dynamic picture of selective forces at short, medium and long evolutionary timescales. Certain functional categories, such as 'development' and 'organogenesis', exhibit temporal patterns of sequence divergence in eukaryotes relative to human. This framework for a grammar of human evolution supports previously postulated theories of robustness and evolvability.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Scaling property of the critical hopping parameters for the Bose-Hubbard model

Recently precise results for the boundary between the Mott insulator phase and the superfluid phase of the homogeneous Bose-Hubbard model have become available for arbitrary integer filling factor g and any lattice dimension d > 1. We use these data for demonstrating that the critical hopping parameters obey a scaling relationship which allows one to map results for different g onto each other. Unexpectedly, the mean-field result captures the dependence of the exact critical parameters on the filling factor almost fully. We also present an approximation formula which describes the critical parameters for d > 1 and any g with high accuracy.Comment: 5 pages, 5 figures. to appear in EPJ

Attosecond Streaking in the Water Window: A New Regime of Attosecond Pulse Characterization

We report on the first streaking measurement of water-window attosecond pulses generated via high harmonic generation, driven by sub-2-cycle, CEP-stable, 1850 nm laser pulses. Both the central photon energy and the energy bandwidth far exceed what has been demonstrated thus far, warranting the investigation of the attosecond streaking technique for the soft X-ray regime and the limits of the FROGCRAB retrieval algorithm under such conditions. We also discuss the problem of attochirp compensation and issues regarding much lower photo-ionization cross sections compared with the XUV in addition to the fact that several shells of target gases are accessed simultaneously. Based on our investigation, we caution that the vastly different conditions in the soft X-ray regime warrant a diligent examination of the fidelity of the measurement and the retrieval procedure.Comment: 14 Pages, 12 figure