A comparative study for the pair-creation contact process using series expansions

A comparative study between two distinct perturbative series expansions for the pair-creation contact process is presented. In contrast to the ordinary contact process, whose supercritical series expansions provide accurate estimates for its critical behavior, the supercritical approach does not work properly when applied to the pair-creation process. To circumvent this problem a procedure is introduced in which one-site creation is added to the pair-creation. An alternative method is the generation of subcritical series expansions which works even for the case of the pure pair-creation process. Differently from the supercritical case, the subcritical series yields estimates that are compatible with numerical simulations

The manifest association structure of the single-factor model: insights from partial correlations

The association structure between manifest variables arising from the single-factor model is investigated using partial correlations. The additional insights to the practitioner provided by partial correlations for detecting a single-factor model are discussed. The parameter space for the partial correlations is presented, as are the patterns of signs in a matrix containing the partial correlations that are not compatible with a single-factor model

Diseño de un sistema de indicadores socio ambientales para el Distrito Capital de Bogotá

El presente documento contiene un resumen del "Proyecto de Diseño de un Sistema de Indicadores Socio-Ambientales para el Distrito Capital de Bogotá". En él se exponen los distintos elementos previstos como componentes del proyecto, en la siguiente forma: después de una breve exposición de los antecedentes, se presenta un marco conceptual que brinda los elementos básicos para la comprensión del tema central del trabajo como es la relación entre los procesos sociales y los procesos ambientales; luego, se presenta el contexto institucional y urbano al que se refiere el sistema propuesto; a continuación se incluye el marco metodológico que reviste especial importancia por cuanto permite la articulación del PLAN MAESTRO DE GESTION AMBIENTAL - PMGA- con el sistema de indicadores y, finalmente, se expone el sistema y se presentan las principales variables e indicadores que hacen parte del mismo. La metodología del proyecto hace explícita la forma de relacionamiento de las variables sociales y ambientales; esta es desarrollada en los indicadores presentados en el modelo Presión-Estado- Respuesta, que es el mismo que utiliza el PMGA.

Identification and analysis of seven effector protein families with different adaptive and evolutionary histories in plant-associated members of the Xanthomonadaceae.

The Xanthomonadaceae family consists of species of non-pathogenic and pathogenic γ-proteobacteria that infect different hosts, including humans and plants. In this study, we performed a comparative analysis using 69 fully sequenced genomes belonging to this family, with a focus on identifying proteins enriched in phytopathogens that could explain the lifestyle and the ability to infect plants. Using a computational approach, we identified seven phytopathogen-enriched protein families putatively secreted by type II secretory system: PheA (CM-sec), LipA/LesA, VirK, and four families involved in N-glycan degradation, NixE, NixF, NixL, and FucA1. In silico and phylogenetic analyses of these protein families revealed they all have orthologs in other phytopathogenic or symbiotic bacteria, and are involved in the modulation and evasion of the immune system. As a proof of concept, we performed a biochemical characterization of LipA from Xac306 and verified that the mutant strain lost most of its lipase and esterase activities and displayed reduced virulence in citrus. Since this study includes closely related organisms with distinct lifestyles and highlights proteins directly related to adaptation inside plant tissues, novel approaches might use these proteins as biotechnological targets for disease control, and contribute to our understanding of the coevolution of plant-associated bacteria

An Evolutionary Learning Approach for Adaptive Negotiation Agents

Developing effective and efficient negotiation mechanisms for real-world applications such as e-Business is challenging since negotiations in such a context are characterised by combinatorially complex negotiation spaces, tough deadlines, very limited information about the opponents, and volatile negotiator preferences. Accordingly, practical negotiation systems should be empowered by effective learning mechanisms to acquire dynamic domain knowledge from the possibly changing negotiation contexts. This paper illustrates our adaptive negotiation agents which are underpinned by robust evolutionary learning mechanisms to deal with complex and dynamic negotiation contexts. Our experimental results show that GA-based adaptive negotiation agents outperform a theoretically optimal negotiation mechanism which guarantees Pareto optimal. Our research work opens the door to the development of practical negotiation systems for real-world applications

MPromDb update 2010: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-seq experimental data

MPromDb (Mammalian Promoter Database) is a curated database that strives to annotate gene promoters identified from ChIP-seq results with the goal of providing an integrated resource for mammalian transcriptional regulation and epigenetics. We analyzed 507 million uniquely aligned RNAP-II ChIP-seq reads from 26 different data sets that include six human cell-types and 10 distinct mouse cell/tissues. The updated MPromDb version consists of computationally predicted (novel) and known active RNAP-II promoters (42 893 human and 48 366 mouse promoters) from various data sets freely available at NCBI GEO database. We found that 36% and 40% of protein-coding genes have alternative promoters in human and mouse genomes and ∼40% of promoters are tissue/cell specific. The identified RNAP-II promoters were annotated using various known and novel gene models. Additionally, for novel promoters we looked into other evidences—GenBank mRNAs, spliced ESTs, CAGE promoter tags and mRNA-seq reads. Users can search the database based on gene id/symbol, or by specific tissue/cell type and filter results based on any combination of tissue/cell specificity, Known/Novel, CpG/NonCpG, and protein-coding/non-coding gene promoters. We have also integrated GBrowse genome browser with MPromDb for visualization of ChIP-seq profiles and to display the annotations. The current release of MPromDb can be accessed at http://bioinformatics.wistar.upenn.edu/MPromDb/

CLA+ memory T cells in atopic dermatitis

Circulating skin‐homing cutaneous lymphocyte‐associated antigen (CLA)$^{+}$ T cells constitute a small subset of human memory T cells involved in several aspects of atopic dermatitis: Staphylococcus aureus related mechanisms, the abnormal Th2 immune response, biomarkers, clinical aspects of the patients, pruritus, and the mechanism of action of targeted therapies. Superantigens, IL‐13, IL‐31, pruritus, CCL17 and early effects on dupilumab‐treated patients have in common that they are associated with the CLA$^{+}$ T cell mechanisms in atopic dermatitis patients. The function of CLA$^{+}$ T cells corresponds with the role of T cells belonging to the skin‐associated lymphoid tissue and could be a reason why they reflect different mechanisms of atopic dermatitis and many other T cell mediated skin diseases. The goal of this review is to gather all this translational information of atopic dermatitis pathology

Dissecting the Genetic Components of Adaptation of Escherichia coli to the Mouse Gut

While pleiotropic adaptive mutations are thought to be central for evolution, little is known on the downstream molecular effects allowing adaptation to complex ecologically relevant environments. Here we show that Escherichia coli MG1655 adapts rapidly to the intestine of germ-free mice by single point mutations in EnvZ/OmpR two-component signal transduction system, which controls more than 100 genes. The selective advantage conferred by the mutations that modulate EnvZ/OmpR activities was the result of their independent and additive effects on flagellin expression and permeability. These results obtained in vivo thus suggest that global regulators may have evolved to coordinate activities that need to be fine-tuned simultaneously during adaptation to complex environments and that mutations in such regulators permit adjustment of the boundaries of physiological adaptation when switching between two very distinct environments

Public views on principles for health care priority setting: findings of a European cross-country study using Q methodology

International audienc

Can Blood Gene Expression Predict Which Patients with Multiple Sclerosis Will Respond to Interferon?

Gene expression patterns from peripheral blood cells may be useful as biomarkers for monitoring MS progression and response to therapy, argue Kaminski and Achiro