Comparing Poisson Sigma Model with A-model

We discuss the A-model as a gauge fixing of the Poisson Sigma Model with target a symplectic structure. We complete the discussion in [arXiv:0706.3164], where a gauge fixing defined by a compatible complex structure was introduced, by showing how to recover the A-model hierarchy of observables in terms of the AKSZ observables. Moreover, we discuss the off-shell supersymmetry of the A-model as a residual BV symmetry of the gauge-fixed PSM action.Comment: 15 pages, one missing reference adde

Geometric quantization and non-perturbative Poisson sigma model

In this note we point out the striking relation between the conditions arising within geometric quantization and the non-perturbative Poisson sigma model. Starting from the Poisson sigma model, we analyze necessary requirements on the path integral measure which imply a certain integrality condition for the Poisson cohomology class $[\alpha]$. The same condition was considered before by Crainic and Zhu but in a different context. In the case when $[\alpha]$ is in the image of the sharp map we reproduce the Vaisman's condition for prequantizable Poisson manifolds. For integrable Poisson manifolds we show, with a different procedure than in Crainic and Zhu, that our integrality condition implies the prequantizability of the symplectic groupoid. Using the relation between prequantization and symplectic reduction we construct the explicit prequantum line bundle for a symplectic groupoid. This picture supports the program of quantization of Poisson manifold via symplectic groupoid. At the end we discuss the case of a generic coisotropic D-brane.Comment: 29 page

Alignment-free Genomic Analysis via a Big Data Spark Platform

Motivation: Alignment-free distance and similarity functions (AF functions, for short) are a well established alternative to two and multiple sequence alignments for many genomic, metagenomic and epigenomic tasks. Due to data-intensive applications, the computation of AF functions is a Big Data problem, with the recent Literature indicating that the development of fast and scalable algorithms computing AF functions is a high-priority task. Somewhat surprisingly, despite the increasing popularity of Big Data technologies in Computational Biology, the development of a Big Data platform for those tasks has not been pursued, possibly due to its complexity. Results: We fill this important gap by introducing FADE, the first extensible, efficient and scalable Spark platform for Alignment-free genomic analysis. It supports natively eighteen of the best performing AF functions coming out of a recent hallmark benchmarking study. FADE development and potential impact comprises novel aspects of interest. Namely, (a) a considerable effort of distributed algorithms, the most tangible result being a much faster execution time of reference methods like MASH and FSWM; (b) a software design that makes FADE user-friendly and easily extendable by Spark non-specialists; (c) its ability to support data- and compute-intensive tasks. About this, we provide a novel and much needed analysis of how informative and robust AF functions are, in terms of the statistical significance of their output. Our findings naturally extend the ones of the highly regarded benchmarking study, since the functions that can really be used are reduced to a handful of the eighteen included in FADE

Neuronal Activity at Synapse Resolution:Reporters and Effectors for Synaptic Neuroscience

The development of methods for the activity-dependent tagging of neurons enabled a new way to tackle the problem of engram identification at the cellular level, giving rise to groundbreaking findings in the field of memory studies. However, the resolution of activity-dependent tagging remains limited to the whole-cell level. Notably, events taking place at the synapse level play a critical role in the establishment of new memories, and strong experimental evidence shows that learning and synaptic plasticity are tightly linked. Here, we provide a comprehensive review of the currently available techniques that enable to identify and track the neuronal activity with synaptic spatial resolution. We also present recent technologies that allow to selectively interfere with specific subsets of synapses. Lastly, we discuss how these technologies can be applied to the study of learning and memory

Lie algebroids, Lie groupoids and TFT

We construct the moduli spaces associated to the solutions of equations of motion (modulo gauge transformations) of the Poisson sigma model with target being an integrable Poisson manifold. The construction can be easily extended to a case of a generic integrable Lie algebroid. Indeed for any Lie algebroid one can associate a BF-like topological field theory which localizes on the space of algebroid morphisms, that can be seen as a generalization of flat connections to the groupoid case. We discuss the finite gauge transformations and discuss the corresponding moduli spaces. We consider the theories both without and with boundaries.Comment: 21 page

Novel asleep techniques for intraoperative assessment of brain connectivity

[no abstract available

Towards equivariant Yang-Mills theory

We study four dimensional gauge theories in the context of an equivariant extension of the Batalin-Vilkovisky (BV) formalism. We discuss the embedding of BV Yang-Mills (YM) theory into a larger BV theory and their relation. Partial integration in the equivariant BV setting (BV push-forward map) is performed explicitly for the abelian case. As result, we obtain a non-local homological generalization of the Cartan calculus and a non-local extension of the abelian YM BV action which satisfies the equivariant master equation.Comment: 27 pages, refs added, published versio

Association between Immunosenescence, Mitochondrial Dysfunction and Frailty Syndrome in Older Adults

Aging is associated with changes in the immune system, increased inflammation and mitochondrial dysfunction. The relationship between these phenomena and the clinical phenotype of frailty is unclear. Here, we evaluated the immune phenotypes, T cell functions and mitochondrial functions of immune cells in frail and robust older subjects. We enrolled 20 frail subjects age- and gender-matched with 20 robust controls, and T cell phenotype, response to immune stimulation, cytokine production and immune cell mitochondrial function were assessed. Our results showed that numbers of CD4+ and CD8+ T cells were decreased in frail subjects, without impairment to their ratios. Memory and naïve T cells were not significantly affected by frailty, whereas the expression of CD28 but not that of ICOS was decreased in T cells from frail subjects. T cells from robust subjects produced more IL-17 after CD28 stimulation. Levels of serum cytokines were similar in frail subjects and controls. Mitochondrial bioenergetics and ATP levels were significantly lower in immune cells from frail subjects. In conclusion, we suggest that changes in T cell profiles are associated with aging rather than with frailty syndrome; however, changes in T cell response to immune stimuli and reduced mitochondrial activity in immune cells may be considered hallmarks of frailty

MicroGen: a MIAME compliant web system for microarray experiment information and workflow management

BACKGROUND: Improvements of bio-nano-technologies and biomolecular techniques have led to increasing production of high-throughput experimental data. Spotted cDNA microarray is one of the most diffuse technologies, used in single research laboratories and in biotechnology service facilities. Although they are routinely performed, spotted microarray experiments are complex procedures entailing several experimental steps and actors with different technical skills and roles. During an experiment, involved actors, who can also be located in a distance, need to access and share specific experiment information according to their roles. Furthermore, complete information describing all experimental steps must be orderly collected to allow subsequent correct interpretation of experimental results. RESULTS: We developed MicroGen, a web system for managing information and workflow in the production pipeline of spotted microarray experiments. It is constituted of a core multi-database system able to store all data completely characterizing different spotted microarray experiments according to the Minimum Information About Microarray Experiments (MIAME) standard, and of an intuitive and user-friendly web interface able to support the collaborative work required among multidisciplinary actors and roles involved in spotted microarray experiment production. MicroGen supports six types of user roles: the researcher who designs and requests the experiment, the spotting operator, the hybridisation operator, the image processing operator, the system administrator, and the generic public user who can access the unrestricted part of the system to get information about MicroGen services. CONCLUSION: MicroGen represents a MIAME compliant information system that enables managing workflow and supporting collaborative work in spotted microarray experiment production