C3C^{3} : A Command-line Catalogue Cross-matching tool for modern astrophysical survey data

In the current data-driven science era, it is needed that data analysis techniques has to quickly evolve to face with data whose dimensions has increased up to the Petabyte scale. In particular, being modern astrophysics based on multi-wavelength data organized into large catalogues, it is crucial that the astronomical catalog cross-matching methods, strongly dependant from the catalogues size, must ensure efficiency, reliability and scalability. Furthermore, multi-band data are archived and reduced in different ways, so that the resulting catalogues may differ each other in formats, resolution, data structure, etc, thus requiring the highest generality of cross-matching features. We present $C^{3}$ (Command-line Catalogue Cross-match), a multi-platform application designed to efficiently cross-match massive catalogues from modern surveys. Conceived as a stand-alone command-line process or a module within generic data reduction/analysis pipeline, it provides the maximum flexibility, in terms of portability, configuration, coordinates and cross-matching types, ensuring high performance capabilities by using a multi-core parallel processing paradigm and a sky partitioning algorithm.Comment: 6 pages, 4 figures, proceedings of the IAU-325 symposium on Astroinformatics, Cambridge University pres

Machine learning based data mining for Milky Way filamentary structures reconstruction

We present an innovative method called FilExSeC (Filaments Extraction, Selection and Classification), a data mining tool developed to investigate the possibility to refine and optimize the shape reconstruction of filamentary structures detected with a consolidated method based on the flux derivative analysis, through the column-density maps computed from Herschel infrared Galactic Plane Survey (Hi-GAL) observations of the Galactic plane. The present methodology is based on a feature extraction module followed by a machine learning model (Random Forest) dedicated to select features and to classify the pixels of the input images. From tests on both simulations and real observations the method appears reliable and robust with respect to the variability of shape and distribution of filaments. In the cases of highly defined filament structures, the presented method is able to bridge the gaps among the detected fragments, thus improving their shape reconstruction. From a preliminary "a posteriori" analysis of derived filament physical parameters, the method appears potentially able to add a sufficient contribution to complete and refine the filament reconstruction.Comment: Proceeding of WIRN 2015 Conference, May 20-22, Vietri sul Mare, Salerno, Italy. Published in Smart Innovation, Systems and Technology, Springer, ISSN 2190-3018, 9 pages, 4 figure

A Command-line Cross-matching tool for modern astrophysical pipelines

The emerging need for efficient, reliable and scalable astronomical catalog cross-matching is becoming more pressing in the current data-driven science era, where the size of data has rapidly increased up to the Petabyte scale. C3 (Command-line Catalogue Cross-matching) is a multi-platform tool designed to efficiently cross-match massive catalogues from modern astronomical surveys, ensuring high-performance capabilities through the use of a multi-core parallel processing paradigm. The tool has been conceived to be executed as a stand-alone command-line process or integrated within any generic data reduction/analysis pipeline, providing the maximum flexibility to the end user, in terms of parameter configuration, coordinates and cross-matching types. In this work we present the architecture and the features of the tool. Moreover, since the modular design of the tool enables an easy customization to specific use cases and requirements, we present also an example of a customized C3 version designed and used in the FP7 project ViaLactea, dedicated to cross-correlate Hi-GAL clumps with multi-band compact sources...

Molecular phenotyping and biomarker development: Are we on our way towards targeted therapy for severe asthma?

Although different phenotypes of severe asthma can be identified, all are characterized by common symptoms. Due to their heterogeneity, they exhibit differences in pathogenesis, etiology and clinical responses to therapeutic approaches. The identification of distinct molecular phenotypes to define severe asthmatic patients will allow us to better understand the pathophysiology of the disease and thus to more precisely target the treatment for each patient. To achieve this goal, a systematic search for new, reliable and stable biomarkers specific for each phenotype is essential. This review focuses on the current known molecular phenotypes of severe asthma and highlights the need for biomarkers that could (either alone or in combination) be predictive of the treatment outcome

Command-line Cross-matching Tool for Modern Astrophysical Pipelines

The emerging need for efficient, reliable and scalable astronomical catalog cross-matching is becoming more pressing in the current data-driven science era, where the size of data has rapidly increased up to the Petabyte scale. C3 (Command-line Catalogue Cross-matching) is a multi-platform tool designed to efficiently cross-match massive catalogues from modern astronomical surveys, ensuring high-performance capabilities through the use of a multi-core parallel processing paradigm. The tool has been conceived to be executed as a stand-alone command-line process or integrated within any generic data reduction/analysis pipeline, providing the maximum flexibility to the end user, in terms of parameter configuration, coordinates and cross-matching types. In this work we present the architecture and the features of the tool. Moreover, since the modular design of the tool enables an easy customization to specific use cases and requirements, we present also an example of a customized C3 version designed and used in the FP7 project ViaLactea, dedicated to cross-correlate Hi-GAL clumps with multi-band compact sources...

Galectin-3: An early predictive biomarker of modulation of airway remodeling in patients with severe asthma treated with omalizumab for 36 months

Background: Bronchial asthma is a heterogeneous disease characterized by three cardinal features: chronic inflammation, variable airflow obstruction, and airway hyperresponsiveness. Asthma has traditionally been defined using nonspecific clinical and physiologic variables that encompass multiple phenotypes and are treated with nonspecific anti-inflammatory therapies. Based on the modulation of airway remodeling after 12 months of anti-immunoglobulin E (IgE) treatment, we identified two phenotypes (omalizumab responder, OR; and non-omalizumab responder, NOR) and performed morphometric analysis of bronchial biopsy specimens. We also found that these two phenotypes were correlated with the presence/absence of galectin-3 (Gal-3) at baseline (i.e., before treatment). The aims of the present study were to investigate the histological and molecular effects of long-term treatment (36 months) with anti-IgE and to analyze the behavior of OR and NOR patients. Methods: All patients were treated with the monoclonal antibody anti-IgE omalizumab for 36 months. The bronchial biopsy specimens were evaluated using morphometric, eosinophilic, and proteomic analysis (MudPIT). New data were compared with previous data, and unsupervised cluster analysis of protein profiles was performed. Results: After 36 months of treatment with omalizumab, reduction of reticular basement membrane (RBM) thickness was confirmed in OR patients (Gal-3-positive at baseline); similarly, the protein profiles (over 500 proteins identified) revealed that, in the OR group, levels of proteins specifically related to fibrosis and inflammation (e.g., smooth muscle and extracellular matrix proteins (including periostin), Gal-3, and keratins decreased by between 5- and 50-fold. Eosinophil levels were consistent with molecular data and decreased by about tenfold less in ORs and increased by twofold to tenfold more in NORs. This tendency was confirmed (p < 0.05) based on both fold change and DAVE algorithms, thus indicating a clear response to anti-IgE treatment in Gal-3-positive patients. Conclusions: Our results showed that omalizumab can be considered a disease-modifying treatment in OR. The proteomic signatures confirmed the presence of Gal-3 at baseline to be a biomarker of long-term reduction in bronchial RBM thickness, eosinophilic inflammation, and muscular and fibrotic components in omalizumab-treated patients with severe asthma. Our findings suggest a possible relationship between Gal-3 positivity and improved pulmonary function

Effects of Different Up-Dosing Regimens for Hymenoptera Venom Immunotherapy on Serum CTLA-4 and IL-10

BACKGROUND: Cytotoxic T lymphocyte associated antigen-4 (CTLA-4) is involved in the activation pathways of T lymphocytes. It has been shown that the circulating form of CTLA-4 is elevated in patients with hymenoptera allergy and can be down regulated by immunotherapy. OBJECTIVE: to assess the effects on CTLA-4 of venom immunotherapy, given with different induction protocols: conventional (6 weeks), rush (3 days) or ultra rush (1 day). METHODS: Sera from patients with hymenoptera allergy were collected at baseline and at the end of the induction phase. CTLA-4 and IL-10 were assayed in the same samples. A subset of patients were assayed also after 12 months of VIT maintenance. RESULTS: Ninety-four patients were studied. Of them, 50 underwent the conventional induction, 20 the rush and 24 the ultra-rush. Soluble CTLA-4 was detectable in all patients at baseline, and significantly decreased at the end of the induction, irrespective of its duration. Of note, a significant decrease of sCTLA-4 could be seen already at 24 hours. In parallel, IL-10 significantly increased at the end of the induction. At 12 months, sCTLA-4 remained low, whereas IL-10 returned to the baseline values. CONCLUSIONS: Serum CTLA4 is an early marker of the immunological effects of venom immunotherapy, and its changes persist after one year of maintenance treatment

A New Orbiting Deployable System for Small Satellite Observations for Ecology and Earth Observation

In this paper, we present several study cases focused on marine, oceanographic, and atmospheric environments, which would greatly benefit from the use of a deployable system for small satellite observations. As opposed to the large standard ones, small satellites have become an effective and affordable alternative access to space, owing to their lower costs, innovative design and technology, and higher revisiting times, when launched in a constellation configuration. One of the biggest challenges is created by the small satellite instrumentation working in the visible (VIS), infrared (IR), and microwave (MW) spectral ranges, for which the resolution of the acquired data depends on the physical dimension of the telescope and the antenna collecting the signal. In this respect, a deployable payload, fitting the limited size and mass imposed by the small satellite architecture, once unfolded in space, can reach performances similar to those of larger satellites. In this study, we show how ecology and Earth Observations can benefit from data acquired by small satellites, and how they can be further improved thanks to deployable payloads. We focus on DORA—Deployable Optics for Remote sensing Applications—in the VIS to TIR spectral range, and on a planned application in the MW spectral range, and we carry out a radiometric analysis to verify its performances for Earth Observation studies